Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 9 of 203
Found at i:3002808 original size:81 final size:81
Alignment explanation
Indices: 3002695--3002962 Score: 382
Period size: 81 Copynumber: 3.3 Consensus size: 81
3002685 CGGTATAACA
*
3002695 GTCATTTTACCCTATGGAGGTATTTAGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCCTATGGAGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACC
3002760 CTATGAGGGTATTTCG
66 CTATGAGGGTATTTCG
* * * *
3002776 GTCATTTTACCCTAT-GAGGGTATTTCGATCATTCTA-TCCTATAGGGGTATTTCGATCATGTTA
1 GTCATTTTACCCTATGGA-GGTATTTCGGTCATTTTACT-CTATAGGGGTATTTCGGTCATTTTA
3002839 CCCTATGAGGGTATTTCG
64 CCCTATGAGGGTATTTCG
* * *
3002857 GTTATTCTACCCTAT-GAGGGTATTTCGGTCATTTTACCCTAT-GTGGGTATTTCGGTCATTTTA
1 GTCATTTTACCCTATGGA-GGTATTTCGGTCATTTTACTCTATAG-GGGTATTTCGGTCATTTTA
*
3002920 CCCTATGGGGGTATTTCG
64 CCCTATGAGGGTATTTCG
*
3002938 ATCATTTTACCCTATGGAGGTATTT
1 GTCATTTTACCCTATGGAGGTATTT
3002963 TCGTCATAAC
Statistics
Matches: 166, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
80 4 0.02
81 160 0.96
82 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (81 bp):
GTCATTTTACCCTATGGAGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACC
CTATGAGGGTATTTCG
Found at i:3002969 original size:27 final size:27
Alignment explanation
Indices: 3002695--3002962 Score: 325
Period size: 27 Copynumber: 9.9 Consensus size: 27
3002685 CGGTATAACA
*
3002695 GTCATTTTACCCTATGGAGGTATTTAG
1 GTCATTTTACCCTATGGAGGTATTTCG
*
3002722 GTCATTTTACTCTATAGG-GGTATTTCG
1 GTCATTTTACCCTAT-GGAGGTATTTCG
3002749 GTCATTTTACCCTAT-GAGGGTATTTCG
1 GTCATTTTACCCTATGGA-GGTATTTCG
3002776 GTCATTTTACCCTAT-GAGGGTATTTCG
1 GTCATTTTACCCTATGGA-GGTATTTCG
* * *
3002803 ATCATTCTATCCTATAGG-GGTATTTCG
1 GTCATTTTACCCTAT-GGAGGTATTTCG
* *
3002830 ATCATGTTACCCTAT-GAGGGTATTTCG
1 GTCATTTTACCCTATGGA-GGTATTTCG
* *
3002857 GTTATTCTACCCTAT-GAGGGTATTTCG
1 GTCATTTTACCCTATGGA-GGTATTTCG
3002884 GTCATTTTACCCTATGTG-GGTATTTCG
1 GTCATTTTACCCTATG-GAGGTATTTCG
*
3002911 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGAGGTATTTCG
*
3002938 ATCATTTTACCCTATGGAGGTATTT
1 GTCATTTTACCCTATGGAGGTATTT
3002963 TCGTCATAAC
Statistics
Matches: 214, Mismatches: 17, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
25 2 0.01
26 1 0.00
27 207 0.97
28 2 0.01
29 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGAGGTATTTCG
Found at i:3020855 original size:23 final size:22
Alignment explanation
Indices: 3020825--3020867 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
3020815 CAAGACACAC
3020825 ATCCCA-TTAATGAACTACATCT
1 ATCCCATTTAA-GAACTACATCT
3020847 ATCCACATTTAAGAACTACAT
1 ATCC-CATTTAAGAACTACAT
3020868 ATTTATCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 11 0.58
24 4 0.21
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.30
Consensus pattern (22 bp):
ATCCCATTTAAGAACTACATCT
Found at i:3021245 original size:39 final size:39
Alignment explanation
Indices: 3021139--3021365 Score: 233
Period size: 39 Copynumber: 5.8 Consensus size: 39
3021129 GGGTGCGTAT
* * ** *
3021139 GTACCGCAGTACAACAGGGGCACGTATGTCCATACAGAG
1 GTACCGAAGTACAACAGGGGCACGTATGTGCATTTAGGG
* * *
3021178 GTACTC-AAGTACAATAGGGGAACATATGTGCATTTAGGG
1 GTAC-CGAAGTACAACAGGGGCACGTATGTGCATTTAGGG
* * *
3021217 GTACTGAAGTACAACAGGGGCATGTATGTGCATTCAGGG
1 GTACCGAAGTACAACAGGGGCACGTATGTGCATTTAGGG
* * *
3021256 GTACCGAAGTACAAAATAGGGCATGTATGTGCATTTAGGG
1 GTACCGAAGTACAACA-GGGGCACGTATGTGCATTTAGGG
* ** *
3021296 GTACCGAAGTACAAGTAATGGCACGTATGTGCA-TTCGGAG
1 GTACCGAAGTACAA-CAGGGGCACGTATGTGCATTTAGG-G
*
3021336 GTAACGAAGTACAACAGGGGCACGTATGTG
1 GTACCGAAGTACAACAGGGGCACGTATGTG
3021366 TATTCATACA
Statistics
Matches: 157, Mismatches: 26, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
39 92 0.59
40 64 0.41
41 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (39 bp):
GTACCGAAGTACAACAGGGGCACGTATGTGCATTTAGGG
Found at i:3021357 original size:79 final size:78
Alignment explanation
Indices: 3021139--3021365 Score: 242
Period size: 79 Copynumber: 2.9 Consensus size: 78
3021129 GGGTGCGTAT
* * * * * * * * *
3021139 GTACCGCAGTACAACAGGGGCACGTATGTCCATACAGAGGT-ACTCAAGTACAATAGGGGAACAT
1 GTACCGAAGTACAACAAGGGCACGTATGTGCATTCGGAGGTAAC-GAAGTACAAAAGGGGCACGT
3021203 ATGTGCATTTAGGG
65 ATGTGCATTTAGGG
* * * * * *
3021217 GTACTGAAGTACAACAGGGGCATGTATGTGCATTCAGG-GGTACCGAAGTACAAAATAGGGCATG
1 GTACCGAAGTACAACAAGGGCACGTATGTGCATTC-GGAGGTAACGAAGTACAAAA-GGGGCACG
3021281 TATGTGCATTTAGGG
64 TATGTGCATTTAGGG
* * *
3021296 GTACCGAAGTACAAGTAATGGCACGTATGTGCATTCGGAGGTAACGAAGTACAACAGGGGCACGT
1 GTACCGAAGTACAA-CAAGGGCACGTATGTGCATTCGGAGGTAACGAAGTACAAAAGGGGCACGT
3021361 ATGTG
65 ATGTG
3021366 TATTCATACA
Statistics
Matches: 122, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
78 42 0.34
79 48 0.39
80 32 0.26
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (78 bp):
GTACCGAAGTACAACAAGGGCACGTATGTGCATTCGGAGGTAACGAAGTACAAAAGGGGCACGTA
TGTGCATTTAGGG
Found at i:3025913 original size:14 final size:12
Alignment explanation
Indices: 3025896--3025943 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
3025886 ATACGAAACC
3025896 GTTATATGGAAAT
1 GTTATAT-GAAAT
*
3025909 AGTTATATGAATT
1 -GTTATATGAAAT
3025922 GTGTATATGAAAT
1 GT-TATATGAAAT
3025935 GTTTATATG
1 G-TTATATG
3025944 GATAGATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 2 0.07
13 20 0.67
14 8 0.27
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (12 bp):
GTTATATGAAAT
Found at i:3027723 original size:74 final size:74
Alignment explanation
Indices: 3027602--3027750 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
3027592 CTGAATCCGA
*
3027602 TCAAGTAGGTTCCGATGAACTACAGAGTAATGTTCTAGCCACCGATCTAAGGGCTATTCATAATG
1 TCAAGTAGGTTCCAATGAACTACAGAGTAATGTTCTAGCCACCGATCTAAGGGCTATTCATAATG
3027667 TGCCCAAAT
66 TGCCCAAAT
3027676 TCAAGTAGGTTCCAATGAACTACAGAGTAATGTTCTAGCCACCGATCTAAGGGCTATTCATAATG
1 TCAAGTAGGTTCCAATGAACTACAGAGTAATGTTCTAGCCACCGATCTAAGGGCTATTCATAATG
3027741 TGCCCAAAT
66 TGCCCAAAT
3027750 T
1 T
3027751 TTAAGAGCAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (74 bp):
TCAAGTAGGTTCCAATGAACTACAGAGTAATGTTCTAGCCACCGATCTAAGGGCTATTCATAATG
TGCCCAAAT
Found at i:3030103 original size:50 final size:50
Alignment explanation
Indices: 3029997--3030238 Score: 200
Period size: 50 Copynumber: 4.7 Consensus size: 50
3029987 GGGAATGAGA
* * * *
3029997 TCCCATGTAAGACCATGTTTGGGACATGGAATTGCCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTA---A-G--ATGAGAGG
*
3030053 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATGAGAGG
** * * * * * **
3030103 TCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCAATATGCGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATGAGAGG
* * * * * * **
3030153 TCCAATGTAAGACCATATCTGGGATATGACATTGGCAGTACAG--GAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTA-AGATGAGAGG
*
3030202 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
3030239 TGTTATTATC
Statistics
Matches: 150, Mismatches: 35, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
49 34 0.23
50 78 0.52
51 1 0.01
52 1 0.01
53 1 0.01
56 35 0.23
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATGAGAGG
Found at i:3030456 original size:20 final size:20
Alignment explanation
Indices: 3030431--3030469 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
3030421 TGAGTTATTT
3030431 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
3030451 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
3030470 GAAAAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:3031873 original size:41 final size:40
Alignment explanation
Indices: 3031816--3031970 Score: 170
Period size: 41 Copynumber: 3.8 Consensus size: 40
3031806 TCATCGGGTG
*
3031816 GAAAATGAATTTATAAAATGATTATATGAATC-AGTTATAT
1 GAAAATGAATATATAAAATGATTATATGAATCGA-TTATAT
*
3031856 AGAAAATGAATATATAAAATGAGTATATGAATCGATTATAT
1 -GAAAATGAATATATAAAATGATTATATGAATCGATTATAT
* * * *
3031897 GAAAAATGAATATATAAATTGTTTATATGATTTGATTATAT
1 G-AAAATGAATATATAAAATGATTATATGAATCGATTATAT
* * * *
3031938 GGAAAT-AGATATACAAAATGATTTTAAGAATCG
1 GAAAATGA-ATATATAAAATGATTATATGAATCG
3031971 GGCATATGGA
Statistics
Matches: 96, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 23 0.24
41 71 0.74
42 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.35
Consensus pattern (40 bp):
GAAAATGAATATATAAAATGATTATATGAATCGATTATAT
Found at i:3031883 original size:13 final size:13
Alignment explanation
Indices: 3031852--3031914 Score: 56
Period size: 13 Copynumber: 4.7 Consensus size: 13
3031842 TGAATCAGTT
*
3031852 ATATAGAAAATGA
1 ATATATAAAATGA
3031865 ATATATAAAATGA
1 ATATATAAAATGA
* *
3031878 GTATAT-GAATCGA
1 ATATATAAAAT-GA
*
3031891 TTATATGAAAAATGA
1 ATATAT--AAAATGA
3031906 ATATATAAA
1 ATATATAAA
3031915 TTGTTTATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 3 0.08
13 27 0.68
15 7 0.17
16 3 0.08
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.30
Consensus pattern (13 bp):
ATATATAAAATGA
Found at i:3031922 original size:28 final size:28
Alignment explanation
Indices: 3031871--3031926 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
3031861 ATGAATATAT
* *
3031871 AAAATGAGTATATGAATCGATTATATGA
1 AAAATGAATATATAAATCGATTATATGA
* *
3031899 AAAATGAATATATAAATTGTTTATATGA
1 AAAATGAATATATAAATCGATTATATGA
3031927 TTTGATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (28 bp):
AAAATGAATATATAAATCGATTATATGA
Found at i:3051528 original size:33 final size:33
Alignment explanation
Indices: 3051462--3051524 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
3051452 AAATTTATGC
* *
3051462 CTTAAATTGAAAATGATTTTTATATAAGGGGAG
1 CTTAAATTGAAAATGACTATTATATAAGGGGAG
3051495 CTTAAATTGAAAATGACTATTAT-TAAGGGG
1 CTTAAATTGAAAATGACTATTATATAAGGGG
3051525 GAGCAATCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (33 bp):
CTTAAATTGAAAATGACTATTATATAAGGGGAG
Found at i:3052233 original size:14 final size:14
Alignment explanation
Indices: 3052214--3052242 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3052204 CATTTAGCTC
3052214 AAGTGTTCTTCTTT
1 AAGTGTTCTTCTTT
3052228 AAGTGTTCTTCTTT
1 AAGTGTTCTTCTTT
3052242 A
1 A
3052243 TATTCATTGC
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:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (14 bp):
AAGTGTTCTTCTTT
Found at i:3054361 original size:79 final size:78
Alignment explanation
Indices: 3054259--3054481 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
3054249 GCTCCTCGTT
* *
3054259 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
3054324 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
3054339 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
3054403 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
3054417 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
3054480 GA
63 GA
3054482 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:3054376 original size:39 final size:40
Alignment explanation
Indices: 3054259--3054481 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
3054249 GCTCCTCGTT
* *
3054259 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
3054299 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
3054339 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
3054378 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
3054417 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
3054458 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
3054482 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:3070002 original size:16 final size:16
Alignment explanation
Indices: 3069981--3070011 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3069971 CATGTTAGAG
3069981 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
3069997 CATATATATTTGAAA
1 CATATAAATTTGAAA
3070012 AAAATTCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:3070202 original size:19 final size:20
Alignment explanation
Indices: 3070160--3070264 Score: 115
Period size: 20 Copynumber: 5.2 Consensus size: 20
3070150 TTTTATATTT
* *
3070160 TTTTTAAAATATAAATTTTAAA
1 TTTTTAAAA-AT-TATTTTGAA
*
3070182 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
*
3070201 -TTTTAAAAATTATTTTGAG
1 TTTTTAAAAATTATTTTGAA
* *
3070220 TCTTTAAAAATTATTTTGAG
1 TTTTTAAAAATTATTTTGAA
*
3070240 TCTTTAAAAATTATTTTGAA
1 TTTTTAAAAATTATTTTGAA
3070260 TTTTT
1 TTTTT
3070265 TTATAATTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.11
19 15 0.21
20 41 0.56
21 1 0.01
22 8 0.11
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:3070227 original size:20 final size:20
Alignment explanation
Indices: 3070192--3070258 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
3070182 TTTTTATAAA
*
3070192 TATTTTGAAT-TTTAAAAAT
1 TATTTTGAGTCTTTAAAAAT
3070211 TATTTTGAGTCTTTAAAAAT
1 TATTTTGAGTCTTTAAAAAT
3070231 TATTTTGAGTCTTTAAAAAT
1 TATTTTGAGTCTTTAAAAAT
3070251 TATTTTGA
1 TATTTTGA
3070259 ATTTTTTTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 9 0.20
20 37 0.80
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (20 bp):
TATTTTGAGTCTTTAAAAAT
Found at i:3071361 original size:18 final size:19
Alignment explanation
Indices: 3071334--3071371 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
3071324 ATTTAACTAG
*
3071334 TATTTTTTTA-TTTTATTT
1 TATTTATTTATTTTTATTT
3071352 TATTTATTTATTTTTATTT
1 TATTTATTTATTTTTATTT
3071371 T
1 T
3071372 CAACTTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (19 bp):
TATTTATTTATTTTTATTT
Found at i:3074629 original size:23 final size:23
Alignment explanation
Indices: 3074594--3074830 Score: 282
Period size: 23 Copynumber: 10.3 Consensus size: 23
3074584 ATAGAACTTA
3074594 CCAC-AAGGACATTACAGAATATG
1 CCACAAAGG-CATTACAGAATATG
* ** *
3074617 TCGTAAAGTCATTACAGAATATG
1 CCACAAAGGCATTACAGAATATG
3074640 CCACAAAGGCATTACAGAATATG
1 CCACAAAGGCATTACAGAATATG
* *
3074663 TCACAAAGACATTACAGAATATG
1 CCACAAAGGCATTACAGAATATG
3074686 CCACAAAGGCATTACAGAATATG
1 CCACAAAGGCATTACAGAATATG
* *
3074709 CCACAAAGGCATTATAAAATATG
1 CCACAAAGGCATTACAGAATATG
* * *
3074732 CCATAAAGACATTATAGAATACT-
1 CCACAAAGGCATTACAGAATA-TG
* *
3074755 CCACAAAGACATTAAAGAATATG
1 CCACAAAGGCATTACAGAATATG
*
3074778 TCACAAAGGCATTACAGAATATG
1 CCACAAAGGCATTACAGAATATG
* *
3074801 CCATAAAGGCATTA-TGAAATATG
1 CCACAAAGGCATTACAG-AATATG
3074824 CCACAAA
1 CCACAAA
3074831 AGCTCTGTTT
Statistics
Matches: 184, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
22 2 0.01
23 178 0.97
24 4 0.02
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.21
Consensus pattern (23 bp):
CCACAAAGGCATTACAGAATATG
Found at i:3075215 original size:20 final size:20
Alignment explanation
Indices: 3075186--3075225 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3075176 GGCTTTACTC
*
3075186 ATACTTATAATCGAATCATA
1 ATACTCATAATCGAATCATA
3075206 ATACTCATAATCGAATCATA
1 ATACTCATAATCGAATCATA
3075226 CTTCTGTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (20 bp):
ATACTCATAATCGAATCATA
Found at i:3079157 original size:67 final size:67
Alignment explanation
Indices: 3079049--3079179 Score: 244
Period size: 67 Copynumber: 2.0 Consensus size: 67
3079039 TTTTCAATTT
* *
3079049 AGAGAGCACACTCCCGCGAACCTCATTTCTTATAGTGGGATTACCAGTCCAGGCTAAATCCCCTA
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTA
3079114 CA
66 CA
3079116 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCT
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCT
3079180 GTAATATAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTA
CA
Found at i:3098235 original size:10 final size:10
Alignment explanation
Indices: 3098216--3098249 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
3098206 CAATTTTCTC
3098216 ACAT-ATAAT
1 ACATCATAAT
3098225 ACATCATAAT
1 ACATCATAAT
3098235 ACATCATAAT
1 ACATCATAAT
3098245 ACATC
1 ACATC
3098250 TCAATTACGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 20 0.83
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (10 bp):
ACATCATAAT
Found at i:3098865 original size:29 final size:29
Alignment explanation
Indices: 3098833--3099016 Score: 226
Period size: 29 Copynumber: 6.3 Consensus size: 29
3098823 TCGTCACCAC
*
3098833 CCCTTTTCATAATCGATAGCCAAAGCTAT
1 CCCTTTTCATAATCGATAGCCGAAGCTAT
* *
3098862 CCCTTTTCATAATCAATAGTCGAAGCTAT
1 CCCTTTTCATAATCGATAGCCGAAGCTAT
* * * * *
3098891 CCCTTTTCATATTCGATGGTCGTCA-CCAT
1 CCCTTTTCATAATCGATAGCCG-AAGCTAT
* *
3098920 CCTTTTTCATAATCGATAGCCAAAGCTAT
1 CCCTTTTCATAATCGATAGCCGAAGCTAT
*
3098949 CCCTTTTCATATTCGATAGCCGAAGCTAT
1 CCCTTTTCATAATCGATAGCCGAAGCTAT
* * *
3098978 CCCTTTTCATATTCAATAGCCGAAGTTAT
1 CCCTTTTCATAATCGATAGCCGAAGCTAT
3099007 CCCTTTTCAT
1 CCCTTTTCAT
3099017 TGGTTGACGA
Statistics
Matches: 133, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
28 1 0.01
29 131 0.98
30 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (29 bp):
CCCTTTTCATAATCGATAGCCGAAGCTAT
Found at i:3098934 original size:87 final size:87
Alignment explanation
Indices: 3098802--3098994 Score: 314
Period size: 87 Copynumber: 2.2 Consensus size: 87
3098792 GTTATAATCG
*
3098802 TCCCTTTTCATTAATCAATGGTCGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTATCCCTT
1 TCCCTTTTCA-TATTCAATGGTCGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTATCCCTT
*
3098867 TTCATAATCAATAGTCGAAGCTA
65 TTCATAATCAATAGCCGAAGCTA
* * *
3098890 TCCCTTTTCATATTCGATGGTCGTCACCATCCTTTTTCATAATCGATAGCCAAAGCTATCCCTTT
1 TCCCTTTTCATATTCAATGGTCGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTT
* *
3098955 TCATATTCGATAGCCGAAGCTA
66 TCATAATCAATAGCCGAAGCTA
3098977 TCCCTTTTCATATTCAAT
1 TCCCTTTTCATATTCAAT
3098995 AGCCGAAGTT
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
87 87 0.90
88 10 0.10
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.36
Consensus pattern (87 bp):
TCCCTTTTCATATTCAATGGTCGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTT
TCATAATCAATAGCCGAAGCTA
Found at i:3099014 original size:87 final size:87
Alignment explanation
Indices: 3098802--3099016 Score: 270
Period size: 87 Copynumber: 2.5 Consensus size: 87
3098792 GTTATAATCG
* * * * *
3098802 TCCCTTTTCATTAATCAATGGTCGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTATCCCTT
1 TCCCTTTTCA-TATTCAATAGCCGTAACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTT
*
3098867 TTCATAATCAATAGTCGAAGCTA
65 TTCATAATCAATAGCCGAAGCTA
* * * * *
3098890 TCCCTTTTCATATTCGATGGTCGTCACCATCCTTTTTCATAATCGATAGCCAAAGCTATCCCTTT
1 TCCCTTTTCATATTCAATAGCCGTAACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTT
* *
3098955 TCATATTCGATAGCCGAAGCTA
66 TCATAATCAATAGCCGAAGCTA
**
3098977 TCCCTTTTCATATTCAATAGCCG-AAGTTATCCCTTTTCAT
1 TCCCTTTTCATATTCAATAGCCGTAA-CCATCCCTTTTCAT
3099017 TGGTTGACGA
Statistics
Matches: 112, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
86 1 0.01
87 101 0.90
88 10 0.09
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.36
Consensus pattern (87 bp):
TCCCTTTTCATATTCAATAGCCGTAACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTT
TCATAATCAATAGCCGAAGCTA
Found at i:3110807 original size:25 final size:25
Alignment explanation
Indices: 3110773--3110825 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
3110763 CCACATGGCA
3110773 ATTAATCCAAACATGCTAACTAGCC
1 ATTAATCCAAACATGCTAACTAGCC
3110798 ATTAATCCAAACATGCTAACTAGCC
1 ATTAATCCAAACATGCTAACTAGCC
3110823 ATT
1 ATT
3110826 TATCAATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (25 bp):
ATTAATCCAAACATGCTAACTAGCC
Found at i:3114346 original size:29 final size:29
Alignment explanation
Indices: 3114314--3114375 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
3114304 TATCAATATC
*
3114314 TATAGTTTTCAAAATCTAGAGTTTCACAA
1 TATAGTTTTCAAAATCTAAAGTTTCACAA
* * *
3114343 TATAGTTTTCAGAATTTAAAGTTTCACAG
1 TATAGTTTTCAAAATCTAAAGTTTCACAA
3114372 TATA
1 TATA
3114376 TAGAAATCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (29 bp):
TATAGTTTTCAAAATCTAAAGTTTCACAA
Found at i:3115805 original size:35 final size:37
Alignment explanation
Indices: 3115763--3115847 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
3115753 GAAATCATGG
* *
3115763 CATGCTTAACATGCGAGTC-AAA-ATCA-AATTAATAA
1 CATGCTTAACATGCGAGCCAAAATATCAGAA-CAATAA
*
3115798 CATGCTTAACATGCGAGCCAAAATATCAGAACATTAA
1 CATGCTTAACATGCGAGCCAAAATATCAGAACAATAA
3115835 CATGCTTAACATG
1 CATGCTTAACATG
3115848 TGATTAAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 18 0.41
36 3 0.07
37 21 0.48
38 2 0.05
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (37 bp):
CATGCTTAACATGCGAGCCAAAATATCAGAACAATAA
Found at i:3118750 original size:16 final size:16
Alignment explanation
Indices: 3118729--3118761 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3118719 TAACGAAATG
3118729 GTAAGTTATGTTTTAT
1 GTAAGTTATGTTTTAT
3118745 GTAAGTTATGTTTTAT
1 GTAAGTTATGTTTTAT
3118761 G
1 G
3118762 ATATACGAAC
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:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (16 bp):
GTAAGTTATGTTTTAT
Found at i:3125965 original size:451 final size:451
Alignment explanation
Indices: 3125112--3126013 Score: 1752
Period size: 451 Copynumber: 2.0 Consensus size: 451
3125102 GAATCCTCAA
3125112 GCAGTTTTGGAAAGGACTTTGCTTTGACGGATGCTAAACCCGCCAAGCAAAGAAAACGAGATTTT
1 GCAGTTTTGGAAAGGACTTTGCTTTGACGGATGCTAAACCCGCCAAGCAAAGAAAACGAGATTTT
3125177 ATATCTTATTAAATTTTTTAAGGTTTCTCAAAATTAAATAAATAAATATAATAATATTAAAAAAC
66 ATATCTTATTAAATTTTTTAAGGTTTCTCAAAATTAAATAAATAAATATAATAATATTAAAAAAC
3125242 CGAAAATTATAATTACATTAATTATAATCAAGATTTCGGTAAACTATATTTATTTATATACGAAC
131 CGAAAATTATAATTACATTAATTATAATCAAGATTTCGGTAAACTATATTTATTTATATACGAAC
3125307 CAAAATCATATTCTCATTATGTGTACGACAACCTTGTACATATAATTTGTTCGATATTTGACTAC
196 CAAAATCATATTCTCATTATGTGTACGACAACCTTGTACATATAATTTGTTCGATATTTGACTAC
3125372 CCAATTAAATTAATTCTATAATTAATTTAATTCATGCGACAACCAAACACAATACCAATTATGTT
261 CCAATTAAATTAATTCTATAATTAATTTAATTCATGCGACAACCAAACACAATACCAATTATGTT
3125437 TTATTCCATTCATTTCAACTATAGGGTGTGACCCTGTAGGTTCTTGTAACGTTAGCAGTAATGTT
326 TTATTCCATTCATTTCAACTATAGGGTGTGACCCTGTAGGTTCTTGTAACGTTAGCAGTAATGTT
3125502 GAAACAATTCCAACGTTACAAACAATGAGTGACACCTAGCAATGCATCATTGCTACCTAAG
391 GAAACAATTCCAACGTTACAAACAATGAGTGACACCTAGCAATGCATCATTGCTACCTAAG
3125563 GCAGTTTTGGAAAGGACTTTGCTTTGACGGATGCTAAACCCGCCAAGCAAAGAAAACGAGATTTT
1 GCAGTTTTGGAAAGGACTTTGCTTTGACGGATGCTAAACCCGCCAAGCAAAGAAAACGAGATTTT
3125628 ATATCTTATTAAATTTTTTAAGGTTTCTCAAAATTAAATAAATAAATATAATAATATTAAAAAAC
66 ATATCTTATTAAATTTTTTAAGGTTTCTCAAAATTAAATAAATAAATATAATAATATTAAAAAAC
3125693 CGAAAATTATAATTACATTAATTATAATCAAGATTTCGGTAAACTATATTTATTTATATACGAAC
131 CGAAAATTATAATTACATTAATTATAATCAAGATTTCGGTAAACTATATTTATTTATATACGAAC
*
3125758 CAAAATCATATTCTCATTATGTGTACGACAACCTTGTACATATAATTTGTTCGATATTTGATTAC
196 CAAAATCATATTCTCATTATGTGTACGACAACCTTGTACATATAATTTGTTCGATATTTGACTAC
3125823 CCAATTAAATTAATTCTATAATTAATTTAATTCATGCGACAACCAAACACAATACCAATTATGTT
261 CCAATTAAATTAATTCTATAATTAATTTAATTCATGCGACAACCAAACACAATACCAATTATGTT
3125888 TTATTCCATTCATTTCAACTATAGGGTGTGACCCTGTAGGTTCTTGTAACGTTAGCAGTAATGTT
326 TTATTCCATTCATTTCAACTATAGGGTGTGACCCTGTAGGTTCTTGTAACGTTAGCAGTAATGTT
* * *
3125953 -AGAACGATTCCAATGTTACAAACAATGAGTGGCACCTAGCAATGCATCATTGCTACCTAAG
391 GA-AACAATTCCAACGTTACAAACAATGAGTGACACCTAGCAATGCATCATTGCTACCTAAG
3126014 TCACAAGAAA
Statistics
Matches: 446, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
450 1 0.00
451 445 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (451 bp):
GCAGTTTTGGAAAGGACTTTGCTTTGACGGATGCTAAACCCGCCAAGCAAAGAAAACGAGATTTT
ATATCTTATTAAATTTTTTAAGGTTTCTCAAAATTAAATAAATAAATATAATAATATTAAAAAAC
CGAAAATTATAATTACATTAATTATAATCAAGATTTCGGTAAACTATATTTATTTATATACGAAC
CAAAATCATATTCTCATTATGTGTACGACAACCTTGTACATATAATTTGTTCGATATTTGACTAC
CCAATTAAATTAATTCTATAATTAATTTAATTCATGCGACAACCAAACACAATACCAATTATGTT
TTATTCCATTCATTTCAACTATAGGGTGTGACCCTGTAGGTTCTTGTAACGTTAGCAGTAATGTT
GAAACAATTCCAACGTTACAAACAATGAGTGACACCTAGCAATGCATCATTGCTACCTAAG
Found at i:3131357 original size:14 final size:14
Alignment explanation
Indices: 3131338--3131369 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
3131328 AGGTCATTTA
3131338 GCCCAACCAAACTG
1 GCCCAACCAAACTG
3131352 GCCCAACCAAACTG
1 GCCCAACCAAACTG
3131366 GCCC
1 GCCC
3131370 GGTGTTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:3136482 original size:14 final size:14
Alignment explanation
Indices: 3136463--3136494 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
3136453 AGGTCATTTA
3136463 GCCCAACCAAACTG
1 GCCCAACCAAACTG
3136477 GCCCAACCAAACTG
1 GCCCAACCAAACTG
3136491 GCCC
1 GCCC
3136495 GGTGTTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:3140056 original size:28 final size:27
Alignment explanation
Indices: 3140023--3140128 Score: 97
Period size: 28 Copynumber: 3.9 Consensus size: 27
3140013 TAAACATGCC
*
3140023 AGAAAAAAAAAGTCTTTGTGGTGATCT
1 AGAAAAAAAAAGCCTTTGTGGTGATCT
* * *
3140050 ATGAAAAATAAAGGCTTTGTGGCGATCT
1 A-GAAAAAAAAAGCCTTTGTGGTGATCT
* * * *
3140078 ACAAAAAAGGAAGCCTTTATGGTTATCT
1 AGAAAAAA-AAAGCCTTTGTGGTGATCT
*
3140106 ACGAAAAAAAAA-CCTTTATGGTG
1 A-GAAAAAAAAAGCCTTTGTGGTG
3140129 TACTCTAAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
27 16 0.25
28 41 0.65
29 6 0.10
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (27 bp):
AGAAAAAAAAAGCCTTTGTGGTGATCT
Found at i:3140188 original size:28 final size:29
Alignment explanation
Indices: 3140139--3140197 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
3140129 TACTCTAAAT
* *
3140139 AATGTCCTTTGTGGCAACCATCCAAAGAA
1 AATGTCCTCTGTGGCAAACATCCAAAGAA
*
3140168 AATGT-CTCTGTGGTAAACATCCAAAGAA
1 AATGTCCTCTGTGGCAAACATCCAAAGAA
3140196 AA
1 AA
3140198 CATTCAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (29 bp):
AATGTCCTCTGTGGCAAACATCCAAAGAA
Found at i:3141378 original size:45 final size:45
Alignment explanation
Indices: 3141329--3141441 Score: 163
Period size: 45 Copynumber: 2.5 Consensus size: 45
3141319 TCATGGTGTT
* * *
3141329 TTTCAGCCATGGTCTTACTCATTTCTGTCATGATGCCATAGCATC
1 TTTCAGCTATGGTCTTACTCATTTCTATCATGACGCCATAGCATC
* * * *
3141374 TTTCAACTATGTTCTTACTCATTTTTATCATGACGCCATAGTATC
1 TTTCAGCTATGGTCTTACTCATTTCTATCATGACGCCATAGCATC
3141419 TTTCAGCTATGGTCTTACTCATT
1 TTTCAGCTATGGTCTTACTCATT
3141442 CTTAGACGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (45 bp):
TTTCAGCTATGGTCTTACTCATTTCTATCATGACGCCATAGCATC
Found at i:3146273 original size:47 final size:47
Alignment explanation
Indices: 3146204--3146297 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
3146194 TGCGTAAAAT
*
3146204 AAAACATGATTTCATCCTCTTTGAAAGCACTTAAAAAAAAACCCTTC
1 AAAACATGATTTCATCCTCTTTGAAAGCACCTAAAAAAAAACCCTTC
* * *
3146251 AAAACATTATTTCATCCTCTTTGAAAGCACCTAAAGAAAAGCCCTTC
1 AAAACATGATTTCATCCTCTTTGAAAGCACCTAAAAAAAAACCCTTC
3146298 TCTTCCACGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.28
Consensus pattern (47 bp):
AAAACATGATTTCATCCTCTTTGAAAGCACCTAAAAAAAAACCCTTC
Found at i:3149027 original size:18 final size:17
Alignment explanation
Indices: 3149004--3149074 Score: 63
Period size: 17 Copynumber: 4.0 Consensus size: 17
3148994 AATGATAAAG
*
3149004 ATTCAATATTATTAAATA
1 ATTCAATAATA-TAAATA
3149022 ATTCAATAATATAAATA
1 ATTCAATAATATAAATA
* * *
3149039 GTACAA-AATGTGAAATTTA
1 ATTCAATAATAT-AAA--TA
3149058 ATTCAATAATATAAATA
1 ATTCAATAATATAAATA
3149075 GTAGATATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
16 4 0.10
17 15 0.36
18 10 0.24
19 9 0.21
20 4 0.10
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (17 bp):
ATTCAATAATATAAATA
Found at i:3149179 original size:17 final size:18
Alignment explanation
Indices: 3149157--3149190 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3149147 TTTTTGGAAG
*
3149157 TTTGG-AGAAGTAAAAGT
1 TTTGGAAGAAATAAAAGT
3149174 TTTGGAAGAAATAAAAG
1 TTTGGAAGAAATAAAAG
3149191 AAAAAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (18 bp):
TTTGGAAGAAATAAAAGT
Found at i:3150005 original size:15 final size:14
Alignment explanation
Indices: 3149977--3150020 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
3149967 AACCATCACA
3149977 TATTTTTTCTTTTTT
1 TATTTTTTC-TTTTT
*
3149992 TATTATTTTCTTTTG
1 TATT-TTTTCTTTTT
*
3150007 TAATTTTTCTTTTT
1 TATTTTTTCTTTTT
3150021 GAATTGATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 9 0.36
15 11 0.44
16 5 0.20
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (14 bp):
TATTTTTTCTTTTT
Found at i:3152197 original size:5 final size:6
Alignment explanation
Indices: 3152182--3152211 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
3152172 TCTGCCTAAC
3152182 AAAAAG AAAAAG AAAAAG -AAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
3152212 CGACATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:3152203 original size:11 final size:11
Alignment explanation
Indices: 3152182--3152211 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
3152172 TCTGCCTAAC
3152182 AAAAAGAAAAAG
1 AAAAAG-AAAAG
3152194 AAAAAGAAAAG
1 AAAAAGAAAAG
3152205 AAAAAGA
1 AAAAAGA
3152212 CGACATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:3153699 original size:31 final size:30
Alignment explanation
Indices: 3153626--3153701 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
3153616 AAAACTTTTT
* *
3153626 TTAAGAAAGTTTAATTAAAATTTTCAAAAA
1 TTAAAAAAGTATAATTAAAATTTTCAAAAA
*
3153656 TTAAAAAGAGTATAATTAAAATATTTTAAAAA
1 TTAAAAA-AGTATAATTAAAAT-TTTCAAAAA
*
3153688 CTT-TAAAAGTATAA
1 -TTAAAAAAGTATAA
3153702 AATTTTGAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 6 0.15
31 20 0.51
32 11 0.28
33 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.36
Consensus pattern (30 bp):
TTAAAAAAGTATAATTAAAATTTTCAAAAA
Found at i:3153753 original size:16 final size:16
Alignment explanation
Indices: 3153732--3153763 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3153722 TTTTTAAAAT
3153732 TTTTTAAAAATTTAAA
1 TTTTTAAAAATTTAAA
*
3153748 TTTTTAAAATTTTAAA
1 TTTTTAAAAATTTAAA
3153764 GTGCAAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTTAAAAATTTAAA
Found at i:3154578 original size:30 final size:28
Alignment explanation
Indices: 3154544--3154617 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 28
3154534 GAATAAAATT
*
3154544 TTTAATAAAAATTACTAATTTATTCATTTA
1 TTTAATAAAAA--ACTAATTTATCCATTTA
3154574 TTTAATATACAAAACTAATTTATCCATTTA
1 TTTAATA-A-AAAACTAATTTATCCATTTA
*
3154604 TTGAATTAAAAAAC
1 TTTAA-TAAAAAAC
3154618 AAAATACAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 5 0.13
30 28 0.72
31 3 0.08
32 3 0.08
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.43
Consensus pattern (28 bp):
TTTAATAAAAAACTAATTTATCCATTTA
Found at i:3155901 original size:16 final size:16
Alignment explanation
Indices: 3155875--3155911 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
3155865 GAAAAAGTAT
3155875 TTTAATCAATTTT-GG
1 TTTAATCAATTTTGGG
3155890 TTTAAGTCAATTTTGGG
1 TTTAA-TCAATTTTGGG
3155907 TTTAA
1 TTTAA
3155912 AGTTAATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 8 0.40
17 7 0.35
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.51
Consensus pattern (16 bp):
TTTAATCAATTTTGGG
Found at i:3163557 original size:25 final size:25
Alignment explanation
Indices: 3163483--3163573 Score: 98
Period size: 25 Copynumber: 3.7 Consensus size: 25
3163473 GTCATTAAGG
*
3163483 TTACCGAT-TCTCAGCTCGAGAAAGC
1 TTACCGATAT-TCAGCTCGAGAGAGC
**
3163508 TTAATGATATTCAGCTCGAGAGAGC
1 TTACCGATATTCAGCTCGAGAGAGC
*
3163533 TTACCGATATTCAGCTCGCA-TGAGC
1 TTACCGATATTCAGCTCG-AGAGAGC
*
3163558 TTACCGAT-TACAGCTC
1 TTACCGATATTCAGCTC
3163574 ATAAGAGCAT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.12
25 48 0.84
26 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (25 bp):
TTACCGATATTCAGCTCGAGAGAGC
Found at i:3163581 original size:24 final size:24
Alignment explanation
Indices: 3163528--3163590 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
3163518 TCAGCTCGAG
* *
3163528 AGAGCTTACCGATATTCAGCTCGCA
1 AGAGCTTACCGAT-TACAGCTCACA
* *
3163553 TGAGCTTACCGATTACAGCTCATA
1 AGAGCTTACCGATTACAGCTCACA
* *
3163577 AGAGCATACTGATT
1 AGAGCTTACCGATT
3163591 CAGAGCTCGT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 19 0.61
25 12 0.39
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (24 bp):
AGAGCTTACCGATTACAGCTCACA
Found at i:3164397 original size:20 final size:20
Alignment explanation
Indices: 3164354--3164395 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
3164344 TAAAGAAAGT
3164354 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAGTAATG
3164374 AAATGCAAAT-GAAAGTAA-G
1 AAATGC-AATGGAAAGTAATG
3164393 AAA
1 AAA
3164396 ATTTGGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (20 bp):
AAATGCAATGGAAAGTAATG
Found at i:3172963 original size:30 final size:29
Alignment explanation
Indices: 3172899--3173076 Score: 137
Period size: 29 Copynumber: 6.1 Consensus size: 29
3172889 GTATGTTAAA
* *
3172899 CGATGG-CTGTAACCGTCCCTTTTCATATT
1 CGATGGTC-GTAACCATCCCTTTTCATAAT
*
3172928 CGATGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGGTCGTAACCATCCCTTTTCA-TAAT
* * *
3172958 CGATGGTCGTCACCATCCCTTGTCATAGT
1 CGATGGTCGTAACCATCCCTTTTCATAAT
* * *
3172987 TGATGGTCGTCACCATCCGTTTTCATAAT
1 CGATGGTCGTAACCATCCCTTTTCATAAT
* * * * * *
3173016 CGATAGCCG-AAGCTATTCCTTTTTATATT
1 CGATGGTCGTAA-CCATCCCTTTTCATAAT
** * *
3173045 CGAAAGTCGTCACCAT-CCTTTTCATGAT
1 CGATGGTCGTAACCATCCCTTTTCATAAT
3173073 CGAT
1 CGAT
3173077 AGCTGAAGCT
Statistics
Matches: 117, Mismatches: 28, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
28 13 0.11
29 77 0.66
30 27 0.23
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.35
Consensus pattern (29 bp):
CGATGGTCGTAACCATCCCTTTTCATAAT
Found at i:3173055 original size:58 final size:57
Alignment explanation
Indices: 3172992--3173162 Score: 193
Period size: 58 Copynumber: 3.0 Consensus size: 57
3172982 ATAGTTGATG
*
3172992 GTCGTCACCATCCGTTTTCATAATCGATAGCCGAAGCTATTCCTTTTTATATTCGAAA
1 GTCGTCACCATCC-TTTTCATAATCGATAGCCGAAGCTATTCCTTTTCATATTCGAAA
* * * *
3173050 GTCGTCACCATCCTTTTCATGATCGATAGCTGAAGCTA-TCTCTTTTCATATTTGATA
1 GTCGTCACCATCCTTTTCATAATCGATAGCCGAAGCTATTC-CTTTTCATATTCGAAA
** ** * *
3173107 G-CTGAAATTATTCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTCGA
1 GTC-GTCACCA-TCCTTTTCATAATCGATAGCCGAAGCTATTCCTTTTCATATTCGA
3173163 TAATCCCCGA
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
56 3 0.03
57 40 0.42
58 51 0.54
59 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (57 bp):
GTCGTCACCATCCTTTTCATAATCGATAGCCGAAGCTATTCCTTTTCATATTCGAAA
Found at i:3173095 original size:29 final size:29
Alignment explanation
Indices: 3173006--3173164 Score: 132
Period size: 29 Copynumber: 5.5 Consensus size: 29
3172996 TCACCATCCG
* *
3173006 TTTTCATAATCGATAGCCGAAGCTAT-TCC
1 TTTTCATATTCGATAGCTGAAGCTATCT-C
* * * *
3173035 TTTTTATATTCGAAAG-TCGTCA-CCATC-C
1 TTTTCATATTCGATAGCT-G-AAGCTATCTC
3173063 TTTTCATGA-TCGATAGCTGAAGCTATCTC
1 TTTTCAT-ATTCGATAGCTGAAGCTATCTC
* **
3173092 TTTTCATATTTGATAGCTGAAATTAT-TCC
1 TTTTCATATTCGATAGCTGAAGCTATCT-C
* *
3173121 TTTTCATATTCGATAGCCGAAGCTATCCC
1 TTTTCATATTCGATAGCTGAAGCTATCTC
3173150 TTTTCATATTCGATA
1 TTTTCATATTCGATA
3173165 ATCCCCGATA
Statistics
Matches: 102, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
27 1 0.01
28 20 0.20
29 80 0.78
30 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (29 bp):
TTTTCATATTCGATAGCTGAAGCTATCTC
Found at i:3180237 original size:15 final size:14
Alignment explanation
Indices: 3180215--3180254 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
3180205 AACTTGTGGA
3180215 AATTAAATTAAACT
1 AATTAAATTAAACT
*
3180229 AAGTTAAATAAAACT
1 AA-TTAAATTAAACT
*
3180244 AAATAAATTAA
1 AATTAAATTAA
3180255 GTAAAATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (14 bp):
AATTAAATTAAACT
Found at i:3182887 original size:18 final size:18
Alignment explanation
Indices: 3182864--3182903 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
3182854 CGACGAATGT
3182864 TATTGGAGATTTATAAAA
1 TATTGGAGATTTATAAAA
3182882 TATTGGAGATTTATAAAA
1 TATTGGAGATTTATAAAA
3182900 TATT
1 TATT
3182904 TTGCTCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (18 bp):
TATTGGAGATTTATAAAA
Found at i:3185523 original size:51 final size:48
Alignment explanation
Indices: 3185401--3185578 Score: 185
Period size: 51 Copynumber: 3.5 Consensus size: 48
3185391 GATGGTCATG
* * *
3185401 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGCGTACC-GGAT-ATTGGTCACA
* * * * *
3185451 TGTTTAGTACTATGTGTAGGCTACTATGCGTACCGGATAACTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAT-A-TT-GGTCACA
* * *
3185502 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGATA-T--TGGTCACA
3185553 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
3185579 TGTGAATCGG
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
49 4 0.04
50 34 0.32
51 67 0.63
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (48 bp):
TGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGATATTGGTCACA
Found at i:3185582 original size:26 final size:26
Alignment explanation
Indices: 3185502--3185582 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
3185492 TTCGATCACG
3185502 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
3185528 CGTGTA-T-CAGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
3185553 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
3185579 TGTG
1 TGTG
3185583 AATCGGTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:3185827 original size:16 final size:16
Alignment explanation
Indices: 3185806--3185837 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3185796 TGATTGAAAG
*
3185806 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
3185822 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
3185838 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:3189772 original size:27 final size:27
Alignment explanation
Indices: 3189740--3189806 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
3189730 ACAAGGGTAT
* * * *
3189740 TTCCTTCATAGTTCGCCATGCATACCG
1 TTCCTTCAGAGTTCACCATGAATACCA
3189767 TTCCTTCAGAGTTCACCATGAATACCA
1 TTCCTTCAGAGTTCACCATGAATACCA
*
3189794 TTCCTTTAGAGTT
1 TTCCTTCAGAGTT
3189807 TGCAATAGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.36
Consensus pattern (27 bp):
TTCCTTCAGAGTTCACCATGAATACCA
Found at i:3189924 original size:27 final size:26
Alignment explanation
Indices: 3189884--3189954 Score: 90
Period size: 25 Copynumber: 2.7 Consensus size: 26
3189874 TAACCTTTTT
3189884 TTTTGCCACAAAGGCTTTCACTACATGG
1 TTTT-CCACAAAGGCTTTC-CTACATGG
* * *
3189912 TTTTTCACAAAGGCTTT-TTTCATGG
1 TTTTCCACAAAGGCTTTCCTACATGG
3189937 TTTTCCACAAAGGCTTTC
1 TTTTCCACAAAGGCTTTC
3189955 TTTTCTAACG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 22 0.58
27 12 0.32
28 4 0.11
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (26 bp):
TTTTCCACAAAGGCTTTCCTACATGG
Found at i:3192429 original size:174 final size:174
Alignment explanation
Indices: 3192139--3192487 Score: 689
Period size: 174 Copynumber: 2.0 Consensus size: 174
3192129 TATAACATAT
3192139 TCATATTAGACATGTCCATCATCACTTCACATATATAAGCTTAAATAGAATTCAACTTAACAAAA
1 TCATATTAGACATGTCCATCATCACTTCACATATATAAGCTTAAATAGAATTCAACTTAACAAAA
3192204 CTACCATATTAACTTACTTTTATACAACATCCATATAAACATATCAAAATGTACAAATTCATAAG
66 CTACCATATTAACTTACTTTTATACAACATCCATATAAACATATCAAAATGTACAAATTCATAAG
3192269 TTCAACACCAAACAAATATTTACATTACACCTATTACATGCCAC
131 TTCAACACCAAACAAATATTTACATTACACCTATTACATGCCAC
3192313 TCATATTAGACATGTCCATCATCACTTCACATATATAAGCTTAAATAGAATTCAACTTAACAAAA
1 TCATATTAGACATGTCCATCATCACTTCACATATATAAGCTTAAATAGAATTCAACTTAACAAAA
3192378 CTACCATATTAACTTACTTTTATACAACATCCATATAAACATATCAAAATGTACAAATTCATAAG
66 CTACCATATTAACTTACTTTTATACAACATCCATATAAACATATCAAAATGTACAAATTCATAAG
*
3192443 TTCAACACCAAACACATATTTACATTACACCTATTACATGCCAC
131 TTCAACACCAAACAAATATTTACATTACACCTATTACATGCCAC
3192487 T
1 T
3192488 AATAACCGAG
Statistics
Matches: 174, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 174 1.00
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.31
Consensus pattern (174 bp):
TCATATTAGACATGTCCATCATCACTTCACATATATAAGCTTAAATAGAATTCAACTTAACAAAA
CTACCATATTAACTTACTTTTATACAACATCCATATAAACATATCAAAATGTACAAATTCATAAG
TTCAACACCAAACAAATATTTACATTACACCTATTACATGCCAC
Found at i:3194698 original size:49 final size:48
Alignment explanation
Indices: 3194623--3194760 Score: 143
Period size: 50 Copynumber: 2.8 Consensus size: 48
3194613 CTGTACTGCA
* ** *
3194623 AATGCCATATCCCAGATGTGGTCTTACATGAGACTCTCATATCGGTGTCC
1 AATGCCATGTCCCAGACATGGTCTTACATG-GACTCTCATATCGGT-ACC
* * * *
3194673 -ATGCCATGTCCCAGACATGGCCTTACGTGGGACCTTTCATCTCGGTACC
1 AATGCCATGTCCCAGACATGGTCTTACAT-GGA-CTCTCATATCGGTACC
* *
3194722 AATGCCATGTCCTAGACATGGTCTTACATGGAGTCTCAT
1 AATGCCATGTCCCAGACATGGTCTTACATGGACTCTCAT
3194761 CCCCCTAATG
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
48 5 0.07
49 30 0.42
50 37 0.51
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (48 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGACTCTCATATCGGTACC
Found at i:3205216 original size:40 final size:40
Alignment explanation
Indices: 3204978--3205202 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
3204968 TTGAATGATG
* * * *
3204978 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
3205018 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
3205058 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
3205097 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
3205137 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
3205178 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
3205203 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 122 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:3205224 original size:119 final size:119
Alignment explanation
Indices: 3204978--3205235 Score: 301
Period size: 119 Copynumber: 2.2 Consensus size: 119
3204968 TTGAATGATG
* *
3204978 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
3205043 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
* * * **
3205097 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
3205160 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAA
* *
3205217 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
3205236 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:3220571 original size:17 final size:17
Alignment explanation
Indices: 3220536--3220571 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3220526 TTTCGCCATC
*
3220536 TGGCAAACTCTAAGTTT
1 TGGCAAACTCTAAGGTT
*
3220553 TGGCAAACTCTAGGGTT
1 TGGCAAACTCTAAGGTT
3220570 TG
1 TG
3220572 ACATACTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (17 bp):
TGGCAAACTCTAAGGTT
Found at i:3226857 original size:129 final size:129
Alignment explanation
Indices: 3226627--3226883 Score: 469
Period size: 129 Copynumber: 2.0 Consensus size: 129
3226617 TATGTTTTTG
* * *
3226627 GGATCGTTGCAACTAGGCCTAGCTAACTCGCATCTTTGTTTTCAAAATTGTTAAAGATTTCTAAA
1 GGATCATTGCAACTAGGCCTAGCTAACTCGCATCTTTATTTTCAAAACTGTTAAAGATTTCTAAA
* *
3226692 GTTTCCATTGATTTTAATTGAAGTTTTTTAATGCTTATGGTAGAGTTTGAAGCTTTGATGGGAT
66 GTTCCCATTGATGTTAATTGAAGTTTTTTAATGCTTATGGTAGAGTTTGAAGCTTTGATGGGAT
3226756 GGATCATTGCAACTAGGCCTAGCTAACTCGCATCTTTATTTTCAAAACTGTTAAAGATTTCTAAA
1 GGATCATTGCAACTAGGCCTAGCTAACTCGCATCTTTATTTTCAAAACTGTTAAAGATTTCTAAA
3226821 GTTCCCATTGATGTTAATTGAAGTTTTTTAATGCTTATGGTAGAGTTTGAAGCTTTGATGGGA
66 GTTCCCATTGATGTTAATTGAAGTTTTTTAATGCTTATGGTAGAGTTTGAAGCTTTGATGGGA
3226884 AATAAGACTA
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 123 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (129 bp):
GGATCATTGCAACTAGGCCTAGCTAACTCGCATCTTTATTTTCAAAACTGTTAAAGATTTCTAAA
GTTCCCATTGATGTTAATTGAAGTTTTTTAATGCTTATGGTAGAGTTTGAAGCTTTGATGGGAT
Found at i:3227650 original size:46 final size:46
Alignment explanation
Indices: 3227570--3227874 Score: 380
Period size: 46 Copynumber: 6.6 Consensus size: 46
3227560 GCTATTTGTT
* * * * * *
3227570 GTGTAGGTTCAACCCGAATGAGTGACCAGGCACTATTGTTCGATTC
1 GTGTAGGTTCAACCCTAACGGGTGACCAAGCACTATTATCCGATTC
* * * ** * *
3227616 ATGTACGTTCAACCCTAATGAATGA-CTAGACACTATTATCCGATTT
1 GTGTAGGTTCAACCCTAACGGGTGACCAAG-CACTATTATCCGATTC
3227662 GTGTAGGTTCAACCCTAACGGGTGACCAAGCACTATTATCCGATTC
1 GTGTAGGTTCAACCCTAACGGGTGACCAAGCACTATTATCCGATTC
3227708 GTGTAGGTTCAACCCTAACGGGTGACCAAGCACTATTATCCGATTC
1 GTGTAGGTTCAACCCTAACGGGTGACCAAGCACTATTATCCGATTC
3227754 GTGTAGGTTCAACCCTAACGGGTGACCAAGCACTATTATCCGATTC
1 GTGTAGGTTCAACCCTAACGGGTGACCAAGCACTATTATCCGATTC
** * * **
3227800 GTGTAGGTTCAACCCTAATAGGTGGTCC-GGCACTATTTATTTGATTC
1 GTGTAGGTTCAACCCTAACGGGT-GACCAAGCACTA-TTATCCGATTC
* *
3227847 ATGTAGGTTCAACCCTAACGAGTGACCA
1 GTGTAGGTTCAACCCTAACGGGTGACCA
3227875 TGTAACGCCC
Statistics
Matches: 227, Mismatches: 27, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
45 2 0.01
46 191 0.84
47 34 0.15
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (46 bp):
GTGTAGGTTCAACCCTAACGGGTGACCAAGCACTATTATCCGATTC
Found at i:3241265 original size:17 final size:17
Alignment explanation
Indices: 3241243--3241278 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
3241233 ATCTTGTCTC
3241243 TTAGTCTGTGAGTGTTG
1 TTAGTCTGTGAGTGTTG
3241260 TTAGTCTGTGAGTGTTG
1 TTAGTCTGTGAGTGTTG
3241277 TT
1 TT
3241279 CAACATGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.06, G:0.33, T:0.50
Consensus pattern (17 bp):
TTAGTCTGTGAGTGTTG
Found at i:3245438 original size:27 final size:26
Alignment explanation
Indices: 3245382--3245480 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 26
3245372 TGTCAATAAG
*
3245382 GAATAGCCTTTTGTGTCAAACTCT-ATAA
1 GAATAGCCTTATG-G-CAAACTCTGA-AA
**
3245410 GAATAGCCTTAGTGGTGAACTCTGAAA
1 GAATAGCCTTA-TGGCAAACTCTGAAA
*
3245437 GAATAGACTTTATGGCAAACTCTGAAA
1 GAATAG-CCTTATGGCAAACTCTGAAA
3245464 GAATAGCCTCTATGGCA
1 GAATAGCCT-TATGGCA
3245481 TTCTCCCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
26 2 0.03
27 40 0.67
28 16 0.27
29 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (26 bp):
GAATAGCCTTATGGCAAACTCTGAAA
Found at i:3245676 original size:88 final size:88
Alignment explanation
Indices: 3245527--3245698 Score: 290
Period size: 88 Copynumber: 2.0 Consensus size: 88
3245517 GAACTCTTAA
* **
3245527 AACTTTGAAGGGATATAGAGAAGTAATGGGTTAATATTGAAAATATATGCTGGATAAGGATGTGA
1 AACTTTGAAGGGATATAGAGAAGTAATGAGTTAATATTGAAAATATATGCTAAATAAGGATGTGA
*
3245592 ACTTTGTATGTTCGAAGGATGTG
66 ACTTAGTATGTTCGAAGGATGTG
* *
3245615 AACTTTGAAGGGATATAGAGAATTAATGAGTTAATATTGAAAATGTATGCTAAATAAGGATGTGA
1 AACTTTGAAGGGATATAGAGAAGTAATGAGTTAATATTGAAAATATATGCTAAATAAGGATGTGA
3245680 ACTTAGTATGTTCGAAGGA
66 ACTTAGTATGTTCGAAGGA
3245699 AGTACCTGTC
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (88 bp):
AACTTTGAAGGGATATAGAGAAGTAATGAGTTAATATTGAAAATATATGCTAAATAAGGATGTGA
ACTTAGTATGTTCGAAGGATGTG
Found at i:3249696 original size:21 final size:21
Alignment explanation
Indices: 3249670--3249710 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3249660 TAGTTCCTTT
*
3249670 TTCTTTGAAAAT-TTCTAAAAA
1 TTCTTT-AAAATATTATAAAAA
3249691 TTCTTTAAAATATTATAAAA
1 TTCTTTAAAATATTATAAAA
3249711 CTTTTAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (21 bp):
TTCTTTAAAATATTATAAAAA
Found at i:3249948 original size:25 final size:25
Alignment explanation
Indices: 3249919--3249967 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
3249909 TTTATCTCTT
3249919 GTTCTTTCAATAAGTCAACTTTTTA
1 GTTCTTTCAATAAGTCAACTTTTTA
3249944 GTTCTTTCAATAAGTCAACTTTTT
1 GTTCTTTCAATAAGTCAACTTTTT
3249968 GGGTTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.49
Consensus pattern (25 bp):
GTTCTTTCAATAAGTCAACTTTTTA
Found at i:3252038 original size:20 final size:20
Alignment explanation
Indices: 3252010--3252055 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
3252000 TCAAATTGAT
* **
3252010 TATAATTATAAAAATTTAAA
1 TATATTTATAAAAACATAAA
*
3252030 TATATTTATAAACACATAAA
1 TATATTTATAAAAACATAAA
3252050 TATATT
1 TATATT
3252056 AAAAATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (20 bp):
TATATTTATAAAAACATAAA
Found at i:3254831 original size:18 final size:18
Alignment explanation
Indices: 3254790--3254832 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
3254780 ACACATAAAT
3254790 AAATAAATATCAAATAAGA
1 AAAT-AATATCAAATAAGA
*
3254809 CAATAATATC-AATAATGA
1 AAATAATATCAAATAA-GA
3254827 AAATAA
1 AAATAA
3254833 ATTATAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 13 0.62
19 3 0.14
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAATATCAAATAAGA
Found at i:3263565 original size:28 final size:28
Alignment explanation
Indices: 3263439--3263584 Score: 109
Period size: 28 Copynumber: 5.2 Consensus size: 28
3263429 ATTACCGTAA
** * * *
3263439 ATGTGGAAGTCCGTCAGGATTATCTCAT
1 ATGTGGAAGTCTATCAAGACTATCTTAT
*
3263467 ATGTGGAAGT-TCGTCAAGACTATCTTAT
1 ATGTGGAAGTCT-ATCAAGACTATCTTAT
* * * *
3263495 ATGTGGAAGTATGTTAGGAAC-ATCTTA-
1 ATGTGGAAGTCTATCAAG-ACTATCTTAT
* * *
3263522 ATGAGGAAGTCCATCAAGACTAACTTAT
1 ATGTGGAAGTCTATCAAGACTATCTTAT
* *
3263550 ATGTGGAAGTCTATCAGGACTATCATAT
1 ATGTGGAAGTCTATCAAGACTATCTTAT
*
3263578 AAGTGGA
1 ATGTGGA
3263585 GATCTTTCAA
Statistics
Matches: 94, Mismatches: 19, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
26 2 0.02
27 17 0.18
28 72 0.77
29 3 0.03
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (28 bp):
ATGTGGAAGTCTATCAAGACTATCTTAT
Found at i:3274957 original size:30 final size:32
Alignment explanation
Indices: 3274898--3274957 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
3274888 ATATATTATA
* * *
3274898 ATATTATATCTTAATTATTAAGTATATATATT
1 ATATTATATATTAATTAATAAGTAAATATATT
3274930 ATATTATATATT-A-TAATAAGTAAATATA
1 ATATTATATATTAATTAATAAGTAAATATA
3274958 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 1 0.04
32 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
ATATTATATATTAATTAATAAGTAAATATATT
Found at i:3274957 original size:32 final size:33
Alignment explanation
Indices: 3274884--3274957 Score: 80
Period size: 35 Copynumber: 2.2 Consensus size: 33
3274874 CTCAAAGTTA
* *
3274884 AAATATATATTATAATATTATATCTTAATTATT
1 AAATATATATTATAATATTATATCTTAATAAGT
*
3274917 AAGTATATATATTATATTA-TATAT-TATAATAAGT
1 AA--ATATATATTATAATATTATATCT-TAATAAGT
3274951 AAATATA
1 AAATATA
3274958 ATAAATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
32 5 0.14
33 3 0.09
34 13 0.37
35 14 0.40
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (33 bp):
AAATATATATTATAATATTATATCTTAATAAGT
Found at i:3276009 original size:40 final size:38
Alignment explanation
Indices: 3275917--3276018 Score: 120
Period size: 40 Copynumber: 2.7 Consensus size: 38
3275907 TTCAAATTCG
**
3275917 AGTCGATGAGGCACTGGGTGCC-AATTTACTTCGGTTT
1 AGTCGATGAGGCACTGGGTGCCAAATTTACTTCGAATT
*
3275954 AGTCTATG-GGACACTGGGTGCCAAATTATTACTTCGAATT
1 AGTCGATGAGG-CACTGGGTGCCAAA-T-TTACTTCGAATT
3275994 A-TCCGATGAGGCACTGGGTGCCAAA
1 AGT-CGATGAGGCACTGGGTGCCAAA
3276019 CTGGTGTGTT
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
36 2 0.04
37 18 0.33
38 2 0.04
39 2 0.04
40 29 0.53
41 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (38 bp):
AGTCGATGAGGCACTGGGTGCCAAATTTACTTCGAATT
Found at i:3278646 original size:13 final size:13
Alignment explanation
Indices: 3278628--3278652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3278618 TTTTAATTAC
3278628 ATTTTATTTTAAA
1 ATTTTATTTTAAA
3278641 ATTTTATTTTAA
1 ATTTTATTTTAA
3278653 GCACGTAATC
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTATTTTAAA
Found at i:3285200 original size:18 final size:18
Alignment explanation
Indices: 3285177--3285221 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
3285167 GTAAAAGGAT
3285177 GAAATTGAGATCAATTTC
1 GAAATTGAGATCAATTTC
*
3285195 GAAATTGAGATCGATTTC
1 GAAATTGAGATCAATTTC
*
3285213 AAAATTGAG
1 GAAATTGAG
3285222 GCTCAGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (18 bp):
GAAATTGAGATCAATTTC
Found at i:3293826 original size:17 final size:16
Alignment explanation
Indices: 3293804--3293848 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
3293794 TACGATTTGG
3293804 TTTATTTATTTTTTGTT
1 TTTATTTATTTTTT-TT
*
3293821 TTTATTTAAATTTTTTT
1 TTTATTT-ATTTTTTTT
3293838 TTTATTT-TTTT
1 TTTATTTATTTT
3293849 GTGATTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 3 0.12
17 16 0.64
18 6 0.24
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (16 bp):
TTTATTTATTTTTTTT
Found at i:3297075 original size:196 final size:196
Alignment explanation
Indices: 3296741--3297134 Score: 644
Period size: 196 Copynumber: 2.0 Consensus size: 196
3296731 CATCTTAGGT
3296741 AGTTCATTGGTAAGTCCGGTACAGTGTGTACCAAAGAAGGGTGGAATTATGATTATGGAGATGAA
1 AGTTCATTGGTAAGTCCGGTACAGTGTGTACCAAAGAAGGGTGGAATTATGATTATGGAGATGAA
* *
3296806 CATAACAAGTTAATCTCAATGAGGTTGGTCACGGGTTGGAGAATTTGTATAGAATACAGAAAATT
66 CATAACAAGTTAATCTCAATGAGGTCGGTCACGGGTTGAAGAATTTGTATAGAATACAGAAAATT
* * * *
3296871 GAACAATGCCACTCGAATGGATCATTTTCTACTGCCTTTTATGGATTAGATGTTGGATCGACTAG
131 GAACAATGCCACTCGAATGGATCATTTTCTACTACCTTTTATGCATCAGATGTTGGACCGACTAG
3296936 C
196 C
* *
3296937 AGTTCATTGGTAAGTCTGGTACAGTGTGTACCAAAGAAGGGTGGAATTATGATTGTGGAGATGAA
1 AGTTCATTGGTAAGTCCGGTACAGTGTGTACCAAAGAAGGGTGGAATTATGATTATGGAGATGAA
** * * *
3297002 CATAATGAGTTAATCTCAATGAGGTCGGTCATGGGTTGAAGAATTTGTATTGACTACAGAAAATT
66 CATAACAAGTTAATCTCAATGAGGTCGGTCACGGGTTGAAGAATTTGTATAGAATACAGAAAATT
* * *
3297067 GAACAATGCCACTCGAATGGATCGTTTTCTGCTACCTTTTATGCATCAGATGTTGGACCGACTGG
131 GAACAATGCCACTCGAATGGATCATTTTCTACTACCTTTTATGCATCAGATGTTGGACCGACTAG
3297132 C
196 C
3297133 AG
1 AG
3297135 GTAACAAATA
Statistics
Matches: 182, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 182 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (196 bp):
AGTTCATTGGTAAGTCCGGTACAGTGTGTACCAAAGAAGGGTGGAATTATGATTATGGAGATGAA
CATAACAAGTTAATCTCAATGAGGTCGGTCACGGGTTGAAGAATTTGTATAGAATACAGAAAATT
GAACAATGCCACTCGAATGGATCATTTTCTACTACCTTTTATGCATCAGATGTTGGACCGACTAG
C
Found at i:3305026 original size:158 final size:158
Alignment explanation
Indices: 3304734--3305052 Score: 575
Period size: 158 Copynumber: 2.0 Consensus size: 158
3304724 AGCACATTTT
3304734 CTTTGGATCGTTTAAGCCTTTCAAGCCTACCATATGAATTTAACCCTTGAAACCTTAGTTTGAGC
1 CTTTGGATCGTTTAAGCCTTTCAAGCCTACCATATGAATTTAACCCTTGAAACCTTAGTTTGAGC
* ** *
3304799 CATATAGCCTATTTTATTGCTATTTACCTACATCATAAGCCATATTTTCATCTTTTTAAAATTTT
66 CATATAGCCTATTATATTGCTATTTACCTACATCATAAGCCATATGGTCATCTTTTTAAAATTTA
3304864 ACCCTATCTTGCACTAATCTTAACTATA
131 ACCCTATCTTGCACTAATCTTAACTATA
*
3304892 CTTTGGATCGTTTGAGCCTTTCAAGCCTACCATATGAATTTAACCCTTGAAACCTTAGTTTGAGC
1 CTTTGGATCGTTTAAGCCTTTCAAGCCTACCATATGAATTTAACCCTTGAAACCTTAGTTTGAGC
* *
3304957 CATATAGCTTATTATATTTCTATTTACCTACATCATAAGCCATATGGTCATCTTTTTAAAATTTA
66 CATATAGCCTATTATATTGCTATTTACCTACATCATAAGCCATATGGTCATCTTTTTAAAATTTA
3305022 ACCCTATCTTGCACTAATCTTAACTATA
131 ACCCTATCTTGCACTAATCTTAACTATA
3305050 CTT
1 CTT
3305053 GTATTGGTGA
Statistics
Matches: 154, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
158 154 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (158 bp):
CTTTGGATCGTTTAAGCCTTTCAAGCCTACCATATGAATTTAACCCTTGAAACCTTAGTTTGAGC
CATATAGCCTATTATATTGCTATTTACCTACATCATAAGCCATATGGTCATCTTTTTAAAATTTA
ACCCTATCTTGCACTAATCTTAACTATA
Found at i:3307914 original size:23 final size:23
Alignment explanation
Indices: 3307888--3307938 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
3307878 ACCTACTTTC
* *
3307888 TTACAGTAATAATTTTTGGGGTA
1 TTACAGTAATAATTTTCGGGATA
*
3307911 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAATAATTTTCGGGATA
3307934 TTACA
1 TTACA
3307939 ATCCTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAATAATTTTCGGGATA
Found at i:3307946 original size:23 final size:23
Alignment explanation
Indices: 3307888--3307946 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 23
3307878 ACCTACTTTC
* * * *
3307888 TTACAGTAATAATTTTTGGGGTA
1 TTACAATACTAATTTTCGGGATA
* *
3307911 TTACAGTAGTAATTTTCGGGATA
1 TTACAATACTAATTTTCGGGATA
*
3307934 TTACAATCCTAAT
1 TTACAATACTAAT
3307947 AAAATGGCGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (23 bp):
TTACAATACTAATTTTCGGGATA
Found at i:3312746 original size:36 final size:36
Alignment explanation
Indices: 3312705--3312777 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
3312695 ACCTATACTT
3312705 AAAATTATTTTAGTTGTTTGTTTTGTAATTTATTAA
1 AAAATTATTTTAGTTGTTTGTTTTGTAATTTATTAA
3312741 AAAATTATTTTAGTTGTTTGTTTTGTAATTTATTAA
1 AAAATTATTTTAGTTGTTTGTTTTGTAATTTATTAA
3312777 A
1 A
3312778 CTAACCCATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (36 bp):
AAAATTATTTTAGTTGTTTGTTTTGTAATTTATTAA
Found at i:3324927 original size:50 final size:50
Alignment explanation
Indices: 3324802--3324987 Score: 200
Period size: 50 Copynumber: 3.7 Consensus size: 50
3324792 GATAATAACA
* *
3324802 TGCCAAAT-CCATGTCCCAGACATGGTCTTACATGGGATGTT-TCGTGTAC--
1 TGCC-AATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * * *
3324851 TGCCAATGTCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* * * ** *
3324901 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
*
3324951 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
3324988 TCTCTTTACC
Statistics
Matches: 113, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
48 7 0.06
49 33 0.29
50 73 0.65
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:3341215 original size:43 final size:43
Alignment explanation
Indices: 3341094--3341215 Score: 115
Period size: 43 Copynumber: 2.8 Consensus size: 43
3341084 AGCCCGTACA
* * * * *
3341094 ATGCCAACGTCCCAGACGTGGTCTTACATGTGATCACAGATCG
1 ATGCCAACTTCCCAGAAGTGGTCTTACATGTAAACAAAGATCG
* * *
3341137 ATGCC-ACTATCCCAAAAAG-GGTCTTACAGGTAAACATAAG-TTG
1 ATGCCAACT-TCCC-AGAAGTGGTCTTACATGTAAACA-AAGATCG
*
3341180 ATGCCAACTTCCCAGAAGTGGTCTTACATGAAAACA
1 ATGCCAACTTCCCAGAAGTGGTCTTACATGTAAACA
3341216 CATATCGAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
42 6 0.10
43 49 0.78
44 8 0.13
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCCAACTTCCCAGAAGTGGTCTTACATGTAAACAAAGATCG
Found at i:3344018 original size:152 final size:152
Alignment explanation
Indices: 3343742--3344045 Score: 554
Period size: 152 Copynumber: 2.0 Consensus size: 152
3343732 TTGTACTACT
* *
3343742 CGGATAAATATATAATCGACTATTATGAGCTTCATTCAATATCATCTGAATTAACTCTAAATTTT
1 CGGATAAATAGATAATCGACTATTATAAGCTTCATTCAATATCATCTGAATTAACTCTAAATTTT
3343807 TCGAAACACATAATCGGTTTCTGAATCTCAAACAATCCTCAGCATCAACTAGAAACTCTGAATCA
66 TCGAAACACATAATCGGTTTCTGAATCTCAAACAATCCTCAGCATCAACTAGAAACTCTGAATCA
3343872 ACATTCAAGTCACACTAAGCCC
131 ACATTCAAGTCACACTAAGCCC
*
3343894 CGGATAAATAGATAATTGACTATTATAAGCTTCATTCAATATCATCTGAATTAACTCTAAATTTT
1 CGGATAAATAGATAATCGACTATTATAAGCTTCATTCAATATCATCTGAATTAACTCTAAATTTT
* * *
3343959 TCGGAACACATAATCGTTTTCTGAATCTCAAACAATCCTCAGCATCAACTAGAAGCTCTGAATCA
66 TCGAAACACATAATCGGTTTCTGAATCTCAAACAATCCTCAGCATCAACTAGAAACTCTGAATCA
3344024 ACATTCAAGTCACACTAAGCCC
131 ACATTCAAGTCACACTAAGCCC
3344046 ATTTTGCAAT
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
152 146 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (152 bp):
CGGATAAATAGATAATCGACTATTATAAGCTTCATTCAATATCATCTGAATTAACTCTAAATTTT
TCGAAACACATAATCGGTTTCTGAATCTCAAACAATCCTCAGCATCAACTAGAAACTCTGAATCA
ACATTCAAGTCACACTAAGCCC
Found at i:3348379 original size:21 final size:22
Alignment explanation
Indices: 3348354--3348394 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3348344 GCTCTCTACT
* *
3348354 TATAA-ACCATAACCGAATCTA
1 TATAATACCAAAACCAAATCTA
3348375 TATAATACCAAAACCAAATC
1 TATAATACCAAAACCAAATC
3348395 ACACCATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.24, G:0.02, T:0.22
Consensus pattern (22 bp):
TATAATACCAAAACCAAATCTA
Found at i:3350367 original size:27 final size:28
Alignment explanation
Indices: 3350337--3350390 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
3350327 ATTTTTGTTA
3350337 TATTTAACATATATTAA-CTTTA-ATAAT
1 TATTTAACATA-ATTAACCTTTATATAAT
* *
3350364 TATTTTACCTAATTAACCTTTATATAA
1 TATTTAACATAATTAACCTTTATATAA
3350391 ATAAATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.22
27 14 0.61
28 4 0.17
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
TATTTAACATAATTAACCTTTATATAAT
Found at i:3354993 original size:39 final size:39
Alignment explanation
Indices: 3354939--3355014 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
3354929 CCACTAGACC
3354939 AGCTAAGGCTAGAACTTAGGGCCTCTCAAACACTTCCCA
1 AGCTAAGGCTAGAACTTAGGGCCTCTCAAACACTTCCCA
3354978 AGCTAAGGCTAGAACTTAGGGCCTCTCAAACACTTCC
1 AGCTAAGGCTAGAACTTAGGGCCTCTCAAACACTTCC
3355015 TAGAACACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (39 bp):
AGCTAAGGCTAGAACTTAGGGCCTCTCAAACACTTCCCA
Found at i:3355694 original size:41 final size:41
Alignment explanation
Indices: 3355632--3355852 Score: 178
Period size: 41 Copynumber: 5.3 Consensus size: 41
3355622 ATTCGCGGCA
* *
3355632 TTTATGGGTAAAACGCTGCTATTGCTTTACCTTTAGCAATG
1 TTTATGGGAAAAACGCCGCTATTGCTTTACCTTTAGCAATG
* * * * * *
3355673 TTTATGAGAAAAACGCCGCTATCGTTTTTAACATTTTGCTATG
1 TTTATGGGAAAAACGCCGCTATTG-CTTT-ACCTTTAGCAATG
* * *
3355716 TTTAT-GCAAAAACGCCGCTATTGCTTTACCTTTCGCAACG
1 TTTATGGGAAAAACGCCGCTATTGCTTTACCTTTAGCAATG
* ***
3355756 TTTATGGGAAAAATGCCGCTATTTTTG-TTATACCTTTAGCGGCG
1 TTTATGGGAAAAACGCCGCTA---TTGCTT-TACCTTTAGCAATG
* * * * **
3355800 TTTA-GGGGAAAACGTCGCTATTTCTTTACCTTTCGCGGTG
1 TTTATGGGAAAAACGCCGCTATTGCTTTACCTTTAGCAATG
3355840 TTTATGGGAAAAA
1 TTTATGGGAAAAA
3355853 TGCTGCTAAC
Statistics
Matches: 143, Mismatches: 28, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
40 32 0.22
41 45 0.31
42 18 0.13
43 30 0.21
44 18 0.13
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (41 bp):
TTTATGGGAAAAACGCCGCTATTGCTTTACCTTTAGCAATG
Found at i:3355831 original size:84 final size:82
Alignment explanation
Indices: 3355626--3355860 Score: 238
Period size: 84 Copynumber: 2.8 Consensus size: 82
3355616 AAAAATATTC
* * * * *
3355626 GCGGCATTTATGGGTAAAACGCTGCTATTGCTTTACCTTTAGCAATGTTTATGAGAAAAACGCCG
1 GCGGCGTTTA-GGGAAAAACGC-GCTATTGCTTTACCTTTCGCAATGTTTATGGGAAAAATGCCG
*
3355691 CTATCGTTTTTAACATTTT
64 CTATCGTTTTTAACATTTA
*** * * *
3355710 GCTATGTTTATGCAAAAACGCCGCTATTGCTTTACCTTTCGCAACGTTTATGGGAAAAATGCCGC
1 GCGGCGTTTAGGGAAAAACG-CGCTATTGCTTTACCTTTCGCAATGTTTATGGGAAAAATGCCGC
* *
3355775 TAT-TTTTGTTATACCTTTA
65 TATCGTTT-TTA-ACATTTA
* * ** *
3355794 GCGGCGTTTAGGGGAAAACGTCGCTATTTCTTTACCTTTCGCGGTGTTTATGGGAAAAATGCTGC
1 GCGGCGTTTAGGGAAAAACG-CGCTATTGCTTTACCTTTCGCAATGTTTATGGGAAAAATGCCGC
3355859 TA
65 TA
3355861 ACCCTGCTCC
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
82 3 0.02
83 52 0.43
84 67 0.55
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (82 bp):
GCGGCGTTTAGGGAAAAACGCGCTATTGCTTTACCTTTCGCAATGTTTATGGGAAAAATGCCGCT
ATCGTTTTTAACATTTA
Found at i:3355843 original size:40 final size:40
Alignment explanation
Indices: 3355724--3355851 Score: 130
Period size: 40 Copynumber: 3.1 Consensus size: 40
3355714 TGTTTATGCA
* ** *
3355724 AAAACGCCGCTATTGCTTTACCTTTCGCAACGTTTATGGGA
1 AAAACGCCGCTATTTCTTTACCTTTCGCGGCGTTTA-GGGG
* * *
3355765 AAAATGCCGCTATTTTTGTTATACCTTTAGCGGCGTTTAGGGG
1 AAAACGCCGCTA--TTTCTT-TACCTTTCGCGGCGTTTAGGGG
* * *
3355808 AAAACGTCGCTATTTCTTTACCTTTCGCGGTGTTTATGGG
1 AAAACGCCGCTATTTCTTTACCTTTCGCGGCGTTTAGGGG
3355848 AAAA
1 AAAA
3355852 ATGCTGCTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
40 23 0.32
41 16 0.23
43 17 0.24
44 15 0.21
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (40 bp):
AAAACGCCGCTATTTCTTTACCTTTCGCGGCGTTTAGGGG
Found at i:3361393 original size:11 final size:11
Alignment explanation
Indices: 3361379--3361404 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3361369 CTTTTTCTTC
3361379 TTTCTCCCCTG
1 TTTCTCCCCTG
3361390 TTTCTCCCCTG
1 TTTCTCCCCTG
3361401 TTTC
1 TTTC
3361405 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:3361786 original size:21 final size:21
Alignment explanation
Indices: 3361762--3361804 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3361752 AATAATAACT
3361762 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
3361783 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
3361804 A
1 A
3361805 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:3366874 original size:21 final size:21
Alignment explanation
Indices: 3366832--3366874 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3366822 TTCAGTATAC
*
3366832 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
3366853 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
3366874 A
1 A
3366875 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:3368126 original size:11 final size:11
Alignment explanation
Indices: 3368112--3368137 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3368102 CTTTTTCTTC
3368112 TTTCTCCCCTG
1 TTTCTCCCCTG
3368123 TTTCTCCCCTG
1 TTTCTCCCCTG
3368134 TTTC
1 TTTC
3368138 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:3368519 original size:21 final size:21
Alignment explanation
Indices: 3368495--3368537 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3368485 AATAATAACT
3368495 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
3368516 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
3368537 A
1 A
3368538 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:3375022 original size:51 final size:51
Alignment explanation
Indices: 3374962--3375295 Score: 310
Period size: 51 Copynumber: 6.6 Consensus size: 51
3374952 ATGAACACGA
* * *
3374962 GTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACAT
1 GTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGTCACAT
* * * * * *
3375013 GTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-CACGT
1 GTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTG-GTCACAT
* * * * *
3375064 GTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGTTACAT
1 GTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TATTGGTCACAT
* * * * *
3375115 GTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGA-AAGCT-TTGGTCACGT
1 GTGTAGTACTATGTGAAGGCTACTACGTG-TACC-GATAA-ATATTGGTCACAT
* *
3375166 ATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAA-ACTTGATCACAT
1 GTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGATAAATA-TTGGTCACAT
* * * *
3375216 GTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAA-ATTGATCACTT
1 GTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGTCACAT
3375265 GTGTAGTACTATGTGAAGGCTACTACGTGTA
1 GTGTAGTACTATGTGAAGGCTACTACGTGTA
3375296 TCGAATGATA
Statistics
Matches: 229, Mismatches: 41, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
49 39 0.17
50 49 0.21
51 137 0.60
52 4 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (51 bp):
GTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGTCACAT
Found at i:3375138 original size:102 final size:101
Alignment explanation
Indices: 3374957--3375298 Score: 394
Period size: 102 Copynumber: 3.4 Consensus size: 101
3374947 TATCGATGAA
* * *
3374957 CACGAGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
3375021 CTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG
65 CTAAGTGAAGGCTACTATGTGTACCGAGAAG-TTTGAG
* * * *
3375059 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
3375124 TAAGTGAAGGCTACTATG-GATACCG-GAAAGCTTTG-G
66 TAAGTGAAGGCTACTATGTG-TACCGAG-AAG-TTTGAG
* * * *
3375160 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACATGTGTAGT
1 -CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGT
* * * * * *
3375223 ACTATGTGAAGGCTACTACGTGAACTGTA-AA-ATTGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AGAAGTTTGAG
*
3375260 CACTTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
3375299 AATGATAAAA
Statistics
Matches: 206, Mismatches: 24, Indels: 22
0.82 0.10 0.09
Matches are distributed among these distances:
99 35 0.17
100 2 0.01
101 43 0.21
102 125 0.61
103 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAGAAGTTTGAG
Found at i:3381817 original size:25 final size:25
Alignment explanation
Indices: 3381783--3381833 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
3381773 TTTTACGAAA
3381783 TGATAAAAATTTTATACTCAATCCT
1 TGATAAAAATTTTATACTCAATCCT
3381808 TGATAAAAATTTTATACTCAATCCT
1 TGATAAAAATTTTATACTCAATCCT
3381833 T
1 T
3381834 TATTTATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TGATAAAAATTTTATACTCAATCCT
Found at i:3382230 original size:32 final size:32
Alignment explanation
Indices: 3382170--3382232 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
3382160 CAAAAAAAAT
* * *
3382170 ATGAGTTATCAAATTAAATTAATTAATTTATC
1 ATGAATTATCAAATTAAAGTAATCAATTTATC
* *
3382202 ATGAATTATTAAATTCAAGTAATCAATTTAT
1 ATGAATTATCAAATTAAAGTAATCAATTTAT
3382233 AAGTTTATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (32 bp):
ATGAATTATCAAATTAAAGTAATCAATTTATC
Found at i:3391916 original size:50 final size:51
Alignment explanation
Indices: 3391831--3391971 Score: 167
Period size: 50 Copynumber: 2.8 Consensus size: 51
3391821 AAGGAGAAGG
* * ***
3391831 GACCAAGGCAAAAACCCGCAAAGGGCGCTTCGAGTCTTGAAAAAAA-GAGA
1 GACCAAGGCAAAAACCCGCAAAGGGAGCTTTGAGTCCAAAAAAAAAGGAGA
* *
3391881 GATCAAGGCGAAAACCCGCAAAGGGAGCTTTGAGTCCAAAAAAAAAGGAGA
1 GACCAAGGCAAAAACCCGCAAAGGGAGCTTTGAGTCCAAAAAAAAAGGAGA
* * * * *
3391932 GGCCAAGGTAAAAACCCGCGAAGGGTGCTTTGAGACCAAA
1 GACCAAGGCAAAAACCCGCAAAGGGAGCTTTGAGTCCAAA
3391972 GGGTATTTGA
Statistics
Matches: 76, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 39 0.51
51 37 0.49
ACGTcount: A:0.41, C:0.21, G:0.28, T:0.11
Consensus pattern (51 bp):
GACCAAGGCAAAAACCCGCAAAGGGAGCTTTGAGTCCAAAAAAAAAGGAGA
Found at i:3393324 original size:44 final size:44
Alignment explanation
Indices: 3393177--3394010 Score: 473
Period size: 44 Copynumber: 18.9 Consensus size: 44
3393167 CATTATGGCG
** **
3393177 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCCA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
3393220 TAATCCTATCTCCCTAAAGTTGCAATGGAACAGATTGAAG-T-TA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
** * * *
3393263 TGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAGGATACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
3393307 AATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAA-ACTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACA
* * * ** * * **
3393351 AGTTTTATCTCCCTAAAGTTATAGTGGAGCAGACTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * *
3393395 AACCTTATCTCCCTGAAGTTGCAGTGAAGCAAATTGAA-ACTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACA
* ** * *
3393439 AATCCTATCTCCCTGAAGTTATAGTGGAGTAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
** * * * * *
3393483 AATCTTATCTCTTTGAGGTTGCAGTAGAGCA-AAT-CATAT-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * ** * *
3393524 AACCTTATCTCCCTGAAGTTACAGTGGAATAGGTTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * *
3393568 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * * * * *
3393613 GATCTTATTTCTCTAAAGTTGTAGTAGAACAGATTCAAGCTATAAGTTGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT-A----CA
* * * * *
3393664 AATATTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CATAT-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
3393705 AA-CATTATTTCCCTAAAGTTGCAGTAGAGCAGGTTGAAGTTACA
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * *
3393749 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACA
* * * *
3393794 AAT-TTCATTTCCCTAAAGTTGTAGTGGAACAGATTGAAGCTATAAATTACA
1 AATCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG------A-TACA
* ** * * *
3393845 GATCTTATCTCTTTGAAGTTGTAGTAGAGCAGA-T---CATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * * *
3393886 AACCCTATTTTCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
3393930 AACCTTATCCCCCTGAAGTTGCAGTGGAGTAGGTTG-AGGT-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * *
3393972 AGTCTTATCTCCCTAAAGTCGCAGTGGAGTAGATTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
3394011 TTAGTGAGCC
Statistics
Matches: 588, Mismatches: 164, Indels: 77
0.71 0.20 0.09
Matches are distributed among these distances:
40 2 0.00
41 81 0.14
42 67 0.11
43 14 0.02
44 291 0.49
45 66 0.11
47 4 0.01
48 1 0.00
49 1 0.00
50 2 0.00
51 56 0.10
52 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
Found at i:3393589 original size:85 final size:85
Alignment explanation
Indices: 3393355--3393954 Score: 288
Period size: 85 Copynumber: 6.8 Consensus size: 85
3393345 ACTACAAGTT
* * * * * ** * *
3393355 TTATCTCCCTAAAGTTATAGTGGAGCAGACTAAAGCCACAAACCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTAAAGTTACAGTAGAACAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
* *
3393420 -GAAGCAAATTGAAACTACAAATCC
66 AG-AGCAAA-TCATA-T-CAAA-CC
* * * ** * * *
3393444 -TATCTCCCTGAAGTTATAGTGGAGTAGATTGAAGCTACAAATCTTATCTCTTTGAGGTTGCAGT
1 TTATCTCCCTAAAGTTACAGTAGAACAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
3393508 AGAGCAAATCATATCAAACC
66 AGAGCAAATCATATCAAACC
* * * * * * *
3393528 TTATCTCCCTGAAGTTACAGTGGAATAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGT
1 TTATCTCCCTAAAGTTACAGTAGAACAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
* ** * * *
3393593 GGAGCAGACTGAAGATAGCAGATC
66 AGAGCA-A---ATCATATCAAACC
* * ** * *
3393617 TTATTTCTCTAAAGTTGTAGTAGAACAGATTCAAGCTATAAGTTGCAAATATTATCTCTCTGAAG
1 TTATCTCCCTAAAGTTACAGTAGAACAGATT---G----AAGTTACAAATCTTATCTCTCTGAAG
* *
3393682 TTGCAGTAGAGCAGATCATATCAAACA
59 TTGCAGTAGAGCAAATCATATCAAACC
* * * * *
3393709 TTATTTCCCTAAAGTTGCAGTAGAGCAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGT
1 TTATCTCCCTAAAGTTACAGTAGAACAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
* * * * **
3393774 GGAGCAGACTGAAGAT-AACGAAT
66 AGAGCA-AAT-CATATCAA--ACC
* ** * * *
3393797 TTCATTTCCCTAAAGTTGTAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTTTGAA
1 TT-ATCTCCCTAAAGTTACAGTAGAACAGATTGAAG-------TTACAAATCTTATCTCTCTGAA
* * *
3393862 GTTGTAGTAGAGCAGATCATAGCAAACC
58 GTTGCAGTAGAGCAAATCATATCAAACC
* * * * * * * * * * *
3393890 CTATTTTCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAACCTTATCCCCCTGAAGTTGCAGT
1 TTATCTCCCTAAAGTTACAGTAGAACAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
3393955 GGAGTAGGTT
Statistics
Matches: 396, Mismatches: 89, Indels: 56
0.73 0.16 0.10
Matches are distributed among these distances:
84 2 0.01
85 123 0.31
86 5 0.01
87 6 0.02
88 64 0.16
89 62 0.16
92 63 0.16
93 2 0.01
94 2 0.01
95 3 0.01
96 64 0.16
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (85 bp):
TTATCTCCCTAAAGTTACAGTAGAACAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
AGAGCAAATCATATCAAACC
Found at i:3393694 original size:96 final size:95
Alignment explanation
Indices: 3393560--3393877 Score: 311
Period size: 96 Copynumber: 3.4 Consensus size: 95
3393550 GAATAGGTTG
* * * * * *
3393560 AAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATTTCT
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAACAGATCTTATTTCC
3393625 CTAAAGTTGTAGTAGAACAGATTCAAGCTAT
66 CTAAAGTTGTAGTAGAACAGATT-AAGCTAT
* * * * *
3393656 AAGTTGCAAATATTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATATCA-AACATTATTTC
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAACAGATC-TTATTTC
* * *
3393716 CCTAAAGTTGCAGTAGAGCAGGTT--G----
65 CCTAAAGTTGTAGTAGAACAGATTAAGCTAT
* *
3393741 AAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAAC-GAAT-TTCATTT
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAACAG-ATCTT-ATTT
*
3393804 CCCTAAAGTTGTAGTGGAACAGATTGAAGCTAT
64 CCCTAAAGTTGTAGTAGAACAGATT-AAGCTAT
* * * *
3393837 AAATTACAGATCTTATCTCTTTGAAGTTGTAGTAGAGCAGA
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
3393878 TCATAGCAAA
Statistics
Matches: 177, Mismatches: 30, Indels: 30
0.75 0.13 0.13
Matches are distributed among these distances:
85 37 0.21
86 1 0.01
88 2 0.01
89 30 0.17
90 1 0.01
91 2 0.01
92 33 0.19
95 1 0.01
96 70 0.40
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (95 bp):
AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAACAGATCTTATTTCC
CTAAAGTTGTAGTAGAACAGATTAAGCTAT
Found at i:3393705 original size:181 final size:181
Alignment explanation
Indices: 3393479--3393958 Score: 667
Period size: 181 Copynumber: 2.7 Consensus size: 181
3393469 AGATTGAAGC
* * *
3393479 TACAAATCTTATCTCTTTGAGGTTGCAGTAGAGCAAATCATATCAAACCTTATCTCCCTGAAGTT
1 TACAAATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATTTCCCTGAAGTT
* ** *
3393544 ACAGTGGAATAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGAT
66 GCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
* * *
3393609 AGC-AGATCTT-ATTTCTCTAAAGTTGTAGTAGAACAGATTCAAGCTATAAGT
131 AACGA-AT-TTCATTTCCCTAAAGTTGTAGTAGAACAGATTCAAGCTATAAAT
* * * * *
3393660 TGCAAATATTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACATTATTTCCCTAAAGTT
1 TACAAATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATTTCCCTGAAGTT
* *
3393725 GCAGTAGAGCAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGAT
66 GCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
* *
3393790 AACGAATTTCATTTCCCTAAAGTTGTAGTGGAACAGATTGAAGCTATAAAT
131 AACGAATTTCATTTCCCTAAAGTTGTAGTAGAACAGATTCAAGCTATAAAT
* * * * *
3393841 TACAGATCTTATCTCTTTGAAGTTGTAGTAGAGCAGATCATAGCAAACCCTATTTTCCTGAAGTT
1 TACAAATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATTTCCCTGAAGTT
* * ** *
3393906 GCAGTGGAGCAGATTAAAGTTACAAACCTTATCCCCCTGAAGTTGCAGTGGAG
66 GCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
3393959 TAGGTTGAGG
Statistics
Matches: 261, Mismatches: 36, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
180 2 0.01
181 258 0.99
182 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (181 bp):
TACAAATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATTTCCCTGAAGTT
GCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
AACGAATTTCATTTCCCTAAAGTTGTAGTAGAACAGATTCAAGCTATAAAT
Found at i:3397818 original size:5 final size:5
Alignment explanation
Indices: 3397808--3397836 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
3397798 TTTTATATGT
3397808 AAATA AAATA AAATA AAATA AAATA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAAT
3397837 TTATAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:3411710 original size:51 final size:51
Alignment explanation
Indices: 3411634--3411736 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
3411624 CAAGCCAAAA
3411634 AGTCCTATGTAACCTTGACAAGTCAATTTATGGATGAGTATCATGCTAGTT
1 AGTCCTATGTAACCTTGACAAGTCAATTTATGGATGAGTATCATGCTAGTT
*
3411685 AGTCCTATGTGACCTTGACAAGTCAATTTATGGATGAGTATCATGCTAGTT
1 AGTCCTATGTAACCTTGACAAGTCAATTTATGGATGAGTATCATGCTAGTT
3411736 A
1 A
3411737 TATGAGAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (51 bp):
AGTCCTATGTAACCTTGACAAGTCAATTTATGGATGAGTATCATGCTAGTT
Found at i:3414406 original size:46 final size:45
Alignment explanation
Indices: 3414339--3414466 Score: 175
Period size: 46 Copynumber: 2.8 Consensus size: 45
3414329 ATGCTATAAA
* ** * *
3414339 TCAGTCTGGTTTTCTTCACTGAAATACCATACCTACTTTTCACAAC
1 TCAGTATGGTTTTCTT-ACTGAAATACCATACCTACGATCCAAAAC
3414385 TCAGTATGGTTTTCGTTACTGAAATACCATACCTACGATCCAAAAC
1 TCAGTATGGTTTTC-TTACTGAAATACCATACCTACGATCCAAAAC
*
3414431 TCAGTATGGTTTTCTTTACTGAATTACCATACCTAC
1 TCAGTATGGTTTTC-TTACTGAAATACCATACCTAC
3414467 ATTCCACACT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
46 72 0.97
47 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (45 bp):
TCAGTATGGTTTTCTTACTGAAATACCATACCTACGATCCAAAAC
Found at i:3421313 original size:46 final size:46
Alignment explanation
Indices: 3421188--3421315 Score: 175
Period size: 46 Copynumber: 2.8 Consensus size: 46
3421178 ATGCTATAAA
* * * ** * *
3421188 TCAGTCTGGTTTTCTTCACTGAAATACCATACCGACTTTTCACAAC
1 TCAGTATGGTTTTCTTTACTGAAATACCATACCTACGATCCAAAAC
*
3421234 TCAGTATGGTTTTCATTACTGAAATACCATACCTACGATCCAAAAC
1 TCAGTATGGTTTTCTTTACTGAAATACCATACCTACGATCCAAAAC
*
3421280 TCAGTATGGTTTTCTTTACTGAATTACCATACCTAC
1 TCAGTATGGTTTTCTTTACTGAAATACCATACCTAC
3421316 ATTCCACACT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (46 bp):
TCAGTATGGTTTTCTTTACTGAAATACCATACCTACGATCCAAAAC
Found at i:3422763 original size:13 final size:13
Alignment explanation
Indices: 3422745--3422769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3422735 TTAATGATAT
3422745 AAAATAAATAAAG
1 AAAATAAATAAAG
3422758 AAAATAAATAAA
1 AAAATAAATAAA
3422770 TATGAAAATT
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAATAAATAAAG
Found at i:3426114 original size:46 final size:49
Alignment explanation
Indices: 3426058--3426160 Score: 124
Period size: 50 Copynumber: 2.2 Consensus size: 49
3426048 CAAAATCTTG
3426058 TTTATTTAA-TTG-TT-TCCAAATCTGATGTTTTAAATAAATATAAATA
1 TTTATTTAATTTGTTTGTCCAAATCTGATGTTTTAAATAAATATAAATA
** * * *
3426104 TTTATTTAATTTGTTTTGTTTAGATCTGGTGTTTTATATAAATATAAATA
1 TTTATTTAATTTG-TTTGTCCAAATCTGATGTTTTAAATAAATATAAATA
3426154 TTT-TTTA
1 TTTATTTA
3426161 TATTATTTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
46 9 0.19
47 3 0.06
49 6 0.12
50 30 0.62
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (49 bp):
TTTATTTAATTTGTTTGTCCAAATCTGATGTTTTAAATAAATATAAATA
Found at i:3426196 original size:48 final size:50
Alignment explanation
Indices: 3426086--3426196 Score: 122
Period size: 48 Copynumber: 2.3 Consensus size: 50
3426076 AATCTGATGT
* ** *
3426086 TTTAA-ATAAATATAAATATTTATTTAATTTGTTTTGTTTAGATCTGGTG
1 TTTAATATAAATATAAATATTTATTTAATTTGATTTGTACAGATCTGGTA
* *
3426135 TTTTATATAAATATAAATATTT-TTT-ATATT-ATTTGTACAGATCTTGTA
1 TTTAATATAAATATAAATATTTATTTAAT-TTGATTTGTACAGATCTGGTA
*
3426183 TTTAATATCAATAT
1 TTTAATATAAATAT
3426197 TTATAATTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
48 27 0.52
49 9 0.17
50 16 0.31
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (50 bp):
TTTAATATAAATATAAATATTTATTTAATTTGATTTGTACAGATCTGGTA
Found at i:3426466 original size:82 final size:82
Alignment explanation
Indices: 3426375--3426804 Score: 522
Period size: 82 Copynumber: 5.4 Consensus size: 82
3426365 CCTATTGTTC
* * *
3426375 AACAAATTTTATTCCATTTTGATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTATTTCGGG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGG
** *
3426440 ATTTATTCCTACCATTT
66 ATTTATTCCCGCCGTTT
* * ** * *
3426457 AATAGATTTTATTCGATGTTGATTTTGTTTCCAAATGAGAATTAATTGAATAATTCTATTTCAGG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGG
*
3426522 ATTTATTCCCGCTGTTT
66 ATTTATTCCCGCCGTTT
* * *
3426539 AACAGATTTTATTCGATTTTAATTTTGTTTCCAAACTAGAATTAATTAAATAATTCTATTTTGGG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGG
* *
3426604 ATTTATTCTCGCTGTTT
66 ATTTATTCCCGCCGTTT
* * *
3426621 AACA-A-ATT-TT--ATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTTGGG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGG
3426681 ATTTATTCCCGCCGTTT
66 ATTTATTCCCGCCGTTT
* * * **
3426698 AACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGATTTAATTAAATAATT-TTTTTCAAG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGG
* * *
3426762 ATTTAATCCTGTCGTTT
66 ATTTATTCCCGCCGTTT
3426779 AACAGA----ATT-GATTTTGATTTTGTTTC
1 AACAGATTTTATTCGATTTTGATTTTGTTTC
3426805 AGAATTTTAA
Statistics
Matches: 308, Mismatches: 35, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
76 17 0.06
77 69 0.22
78 1 0.00
79 4 0.01
80 4 0.01
81 26 0.08
82 187 0.61
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (82 bp):
AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGG
ATTTATTCCCGCCGTTT
Found at i:3426709 original size:159 final size:162
Alignment explanation
Indices: 3426375--3426752 Score: 523
Period size: 159 Copynumber: 2.3 Consensus size: 162
3426365 CCTATTGTTC
* * *
3426375 AACAAATTTTATTCCATTTTGATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTATTTCGGG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGG
* * ** *
3426440 ATTTATTCCTACCATTTAATAGATTTTATTCGATGTTGATTTTGTTTCCAAATGAGAATTAATTG
66 ATTTATTCCTACCATTTAACAAATTTTATT--ATGTTGATTTTGTTTCCAAACAAGAATTAATTA
*
3426505 AATAATTCTATTTCAGGATTTATTCCCGCTGTTT
129 AATAATTCTATTTCAGGATTTATTCCCGCCGTTT
* * *
3426539 AACAGATTTTATTCGATTTTAATTTTGTTTCCAAACTAGAATTAATTAAATAATTCTATTTTGGG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGG
* *
3426604 ATTTATT-CT-CGCTGTTTAACAAATTTTA-T-T-TTGATTTTGTTTCCAAACAAGATTTAATTA
66 ATTTATTCCTAC-C-ATTTAACAAATTTTATTATGTTGATTTTGTTTCCAAACAAGAATTAATTA
**
3426664 AATAATTCTATTTTGGGATTTATTCCCGCCGTTT
129 AATAATTCTATTTCAGGATTTATTCCCGCCGTTT
* *
3426698 AACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGATTTAATTAAATAATT
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATT
3426753 TTTTTCAAGA
Statistics
Matches: 192, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
159 108 0.56
160 1 0.01
162 1 0.01
163 4 0.02
164 78 0.41
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.47
Consensus pattern (162 bp):
AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGG
ATTTATTCCTACCATTTAACAAATTTTATTATGTTGATTTTGTTTCCAAACAAGAATTAATTAAA
TAATTCTATTTCAGGATTTATTCCCGCCGTTT
Found at i:3429651 original size:32 final size:32
Alignment explanation
Indices: 3429615--3429675 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
3429605 AAATATCTCG
* *
3429615 ATTTGATTTTATTTCAATCAGATTGATTTTCA
1 ATTTGATTTGATTTCAATCAAATTGATTTTCA
* *
3429647 ATTTGATTTGATTTTATTCAAATTGATTT
1 ATTTGATTTGATTTCAATCAAATTGATTT
3429676 AAAGGCTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.56
Consensus pattern (32 bp):
ATTTGATTTGATTTCAATCAAATTGATTTTCA
Found at i:3436256 original size:17 final size:16
Alignment explanation
Indices: 3436234--3436290 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
3436224 TCATTAATCT
3436234 AATAAATAATGAAAATA
1 AATAAAT-ATGAAAATA
*
3436251 AATAAATACGAAAAATA
1 AATAAATATG-AAAATA
* * *
3436268 AAAAAATGATAAAAATC
1 AATAAAT-ATGAAAATA
3436285 AATAAA
1 AATAAA
3436291 CCAATCAGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 2 0.06
17 29 0.91
18 1 0.03
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.19
Consensus pattern (16 bp):
AATAAATATGAAAATA
Done.