Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 183 of 345
Found at i:52015175 original size:37 final size:37
Alignment explanation
Indices: 52015125--52015198 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
52015115 CATACACGGG
52015125 TTAATTCCCTACAAATTATATGATTATTTTAATCAAA
1 TTAATTCCCTACAAATTATATGATTATTTTAATCAAA
52015162 TTAATTCCCTACAAATTATATGATTATTTTAATCAAA
1 TTAATTCCCTACAAATTATATGATTATTTTAATCAAA
52015199 ATAAAGTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.43
Consensus pattern (37 bp):
TTAATTCCCTACAAATTATATGATTATTTTAATCAAA
Found at i:52016491 original size:26 final size:26
Alignment explanation
Indices: 52016460--52016518 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
52016450 AAGAAGTCTT
*
52016460 TGTGGCATAATATGAAAGAAA-GCCTC
1 TGTGGCATAATATGAAA-AAATGCCAC
*
52016486 TGTGGCGTAATATGAAAAAATGCCAC
1 TGTGGCATAATATGAAAAAATGCCAC
52016512 TGTGGCA
1 TGTGGCA
52016519 AACTCCATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (26 bp):
TGTGGCATAATATGAAAAAATGCCAC
Found at i:52019926 original size:85 final size:85
Alignment explanation
Indices: 52019780--52019942 Score: 213
Period size: 85 Copynumber: 1.9 Consensus size: 85
52019770 GTCTAAGACA
* * * * *
52019780 TCGTGTAAGACCGTGTCTGGGACATAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATTGAGATTTACATATAAGACCACGTCTGGGA
52019845 CATCGACATTGTATCTGATT
66 CATCGACATTGTATCTGATT
* *
52019865 TCGTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGA-ATTT-CATGTAAGACCACGTCTGG
1 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCG--ATTGAGATTTACATATAAGACCACGTCTGG
* *
52019928 GACGTTGACATTGTA
64 GACATCGACATTGTA
52019943 CTTGTTTATG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 58 0.87
86 4 0.06
87 5 0.07
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATTGAGATTTACATATAAGACCACGTCTGGGA
CATCGACATTGTATCTGATT
Found at i:52022775 original size:40 final size:40
Alignment explanation
Indices: 52022731--52022916 Score: 250
Period size: 40 Copynumber: 4.7 Consensus size: 40
52022721 TTTGATGTGT
* *
52022731 GTATCCGGGCTTAAAGACCCGCAGGCTTTATGCTGGAATG
1 GTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATG
* *
52022771 GTATCCGGATTTAAAGACCCGCAGGCTATATGCTGGAATT
1 GTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATG
* *
52022811 GTATCCGGATTTAAAGACCCGCAGGCTATATGCTGGAATT
1 GTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATG
** *
52022851 GTATCCAAGTTTAAAGACCCGCAGGCT-TCGTGCTGGAATG
1 GTATCCGGGTTTAAAGACCCGCAGGCTAT-ATGCTGGAATG
* *
52022891 GAATCCGGG-TTAAAGACCCGTAGGCT
1 GTATCCGGGTTTAAAGACCCGCAGGCT
52022917 CGTGTTAGAA
Statistics
Matches: 132, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 17 0.13
40 115 0.87
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATG
Found at i:52037181 original size:40 final size:39
Alignment explanation
Indices: 52037057--52037198 Score: 140
Period size: 40 Copynumber: 3.6 Consensus size: 39
52037047 TGAAAATTAC
* * *
52037057 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAG-TAT
* * * *
52037097 ATCCGGGCCAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAG-TAT
* * *
52037137 ATCCGGGCTAAGACCCGAAGGCATTTGTCCAAATCGTGAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGT-AT
* * *
52037177 ATCCGGGTTAAGTCCCGTAGGC
1 ATCCGGGCTAAGACCCGAAGGC
52037199 CTTGGTGCGG
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 83 0.99
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTAT
Found at i:52045221 original size:40 final size:39
Alignment explanation
Indices: 52045135--52045318 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
52045125 AAATTGAATG
* * * * *
52045135 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
52045175 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
52045215 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
52045255 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
52045294 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
52045319 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:52053060 original size:40 final size:40
Alignment explanation
Indices: 52053001--52053187 Score: 162
Period size: 40 Copynumber: 4.7 Consensus size: 40
52052991 CATTGGAATG
* * *
52053001 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTATT
* * *
52053041 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCAAGTTATT
* * * **
52053081 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTATT
* * * * *
52053121 AAATCCGGGTTAAGACCCGAAGGCAATCATGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGC-AAGTTATT
* * * *
52053161 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
52053188 CGAGGGAGTC
Statistics
Matches: 119, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
39 3 0.03
40 112 0.94
41 4 0.03
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTATT
Found at i:52053135 original size:80 final size:80
Alignment explanation
Indices: 52053001--52053154 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
52052991 CATTGGAATG
* * * ** *
52053001 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCAAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
* *
52053066 TTCGTGCGAGTTGTT
66 ATCATGCGAGTTGTT
* * * *
52053081 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCAAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
52053146 ATCATGCGA
66 ATCATGCGA
52053155 ATCACTATAA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCAAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCATGCGAGTTGTT
Found at i:52058485 original size:22 final size:22
Alignment explanation
Indices: 52058441--52058487 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
52058431 GAGACATAAT
* *
52058441 AAATATATCTTTATATGATAGA
1 AAATATATCTTTACATGAGAGA
52058463 AAAT-TATCTTTACATTGAGAGA
1 AAATATATCTTTACA-TGAGAGA
52058485 AAA
1 AAA
52058488 AATTTTAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (22 bp):
AAATATATCTTTACATGAGAGA
Found at i:52059603 original size:15 final size:15
Alignment explanation
Indices: 52059574--52059631 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
52059564 ATTTAAATTC
*
52059574 AATAATTAA-ATTTT
1 AATACTTAATATTTT
52059588 AATACTTAATATTTT
1 AATACTTAATATTTT
* *
52059603 AACATTTAAT-TTTT
1 AATACTTAATATTTT
*
52059617 CATCACTTAATATTT
1 AAT-ACTTAATATTT
52059632 CAATTTGTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 13 0.37
15 19 0.54
16 3 0.09
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.52
Consensus pattern (15 bp):
AATACTTAATATTTT
Found at i:52064426 original size:13 final size:15
Alignment explanation
Indices: 52064396--52064432 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
52064386 ATATTATGTC
52064396 AATAAATAATTTCAAA
1 AATAAAT-ATTTCAAA
52064412 AATAAATA-TTCAAA
1 AATAAATATTTCAAA
52064426 AA-AAATA
1 AATAAATA
52064433 GCTTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 8 0.38
15 1 0.05
16 7 0.33
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAAATATTTCAAA
Found at i:52066950 original size:70 final size:69
Alignment explanation
Indices: 52066810--52067094 Score: 250
Period size: 71 Copynumber: 4.0 Consensus size: 69
52066800 TACAACTGAC
** * * * * * * *
52066810 AGCTTCAACTTGCACTAACTATTTTAAAGGCTGTGGTTTTAAACCTACGATCTTTAA-AGCTATA
1 AGCTT-AACTTGCACTAACTATTTTAGGGGCTGTGGTATTGAACCTGCGAGCCTTAAGATC-ACA
*
52066874 GTTAGG
64 GCTAGG
* * * *
52066880 AGCTTCAGCTTGCACTAACTATTTTAGGGGCTGTGGTGTTGAACCTGCGAGCCTTTAGATCACAA
1 AGCTT-AACTTGCACTAACTATTTTAGGGGCTGTGGTATTGAACCTGCGAGCCTTAAGATCACAG
52066945 CTAGG
65 CTAGG
* * * * *
52066950 AGCCTTAACTTTCACTAACTATTTTGGGGGGCTATGGTATTGAACCTGCTAGCCATAAGATCACA
1 AG-CTTAACTTGCACTAACTATTTT-AGGGGCTGTGGTATTGAACCTGCGAGCCTTAAGATCACA
52067015 GCTAGG
64 GCTAGG
* * * * * *
52067021 AGCCTTAGCTCT-CATTAACTATTTTTAGGGGTTGTAGTATTGAACTTGCGAGCCCTAAGATCAC
1 AG-CTTAACT-TGCACTAACTA-TTTTAGGGGCTGTGGTATTGAACCTGCGAGCCTTAAGATCAC
*
52067085 AGCTTGG
63 AGCTAGG
52067092 AGC
1 AGC
52067095 CTTAGCTCTT
Statistics
Matches: 178, Mismatches: 32, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
70 74 0.42
71 99 0.56
72 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (69 bp):
AGCTTAACTTGCACTAACTATTTTAGGGGCTGTGGTATTGAACCTGCGAGCCTTAAGATCACAGC
TAGG
Found at i:52067117 original size:71 final size:71
Alignment explanation
Indices: 52066894--52067330 Score: 307
Period size: 71 Copynumber: 6.2 Consensus size: 71
52066884 TCAGCTTGCA
* * * * * *
52066894 CTAACTA-TTTTAGGGGCTGTGGTGTTGAACCTGCGAGCCTTTAGATCACAACTAGGAGCCTTAA
1 CTAACTATTTTTAGGGGCTGCGGTATTGAACCTGCGAGCCCTAAGATCACAGCTAGGAGCCTTAG
*
52066958 CT-TTCA
66 CTCTT-T
** ** * *
52066964 CTAACTATTTTGGGGGGCTATGGTATTGAACCTGCTAGCCATAAGATCACAGCTAGGAGCCTTAG
1 CTAACTATTTTTAGGGGCTGCGGTATTGAACCTGCGAGCCCTAAGATCACAGCTAGGAGCCTTAG
*
52067029 CTCTCAT
66 CTCT-TT
* ** * *
52067036 -TAACTATTTTTAGGGGTTGTAGTATTGAACTTGCGAGCCCTAAGATCACAGCTTGGAGCCTTAG
1 CTAACTATTTTTAGGGGCTGCGGTATTGAACCTGCGAGCCCTAAGATCACAGCTAGGAGCCTTAG
52067100 CTCTTT
66 CTCTTT
* ** * ** * * * * *
52067106 CTAACTATTTTTTAAGGTTTACAATATTGAATCTGTGAGCCCCAAGATCATAGCT-GAGAGCTTT
1 CTAACTA-TTTTTAGGGGCTGCGGTATTGAACCTGCGAGCCCTAAGATCACAGCTAG-GAGCCTT
*
52067170 AGCTCTCGT
64 AGCTCT-TT
* * * * * ** * *
52067179 -TAACTATTTTTGGGGGTTGCGGTATTAAACCTGTGAGCCCTAAGATCATATTTGGGAACCTTAG
1 CTAACTATTTTTAGGGGCTGCGGTATTGAACCTGCGAGCCCTAAGATCACAGCTAGGAGCCTTAG
52067243 CTC--T
66 CTCTTT
* * * * * * * *
52067247 CTAACTATTGTT--GGGCTGCGGTATTAAACTTGTGAGCTCTAAGATCATAACTGGGAGGAGTCT
1 CTAACTATTTTTAGGGGCTGCGGTATTGAACCTGCGAGCCCTAAGATCACAGCT---AGGAGCCT
52067310 TAGCTCTTT
63 TAGCTCTTT
52067319 CTAACTATTTTT
1 CTAACTATTTTT
52067331 TGGGAGGAGG
Statistics
Matches: 297, Mismatches: 56, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
67 35 0.12
68 1 0.00
69 10 0.03
70 19 0.06
71 162 0.55
72 69 0.23
73 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (71 bp):
CTAACTATTTTTAGGGGCTGCGGTATTGAACCTGCGAGCCCTAAGATCACAGCTAGGAGCCTTAG
CTCTTT
Found at i:52067302 original size:67 final size:69
Alignment explanation
Indices: 52067138--52067302 Score: 199
Period size: 67 Copynumber: 2.4 Consensus size: 69
52067128 AATATTGAAT
* * * * * * *
52067138 CTGTGAGCCCCAAGATCATAGCTGAGAGCTTTAGCTCTCGTTAACTATTTTTGGGGGTTGCGGTA
1 CTGTGAGCCCTAAGATCATAACTGGGAACCTTAGCTCTCG-TAACTATTGTT-GGGGCTGCGGTA
52067203 TTAAAC
64 TTAAAC
**
52067209 CTGTGAGCCCTAAGATCATATTTGGGAACCTTAGCTCTC-TAACTATTGTT-GGGCTGCGGTATT
1 CTGTGAGCCCTAAGATCATAACTGGGAACCTTAGCTCTCGTAACTATTGTTGGGGCTGCGGTATT
52067272 AAAC
66 AAAC
* *
52067276 TTGTGAGCTCTAAGATCATAACTGGGA
1 CTGTGAGCCCTAAGATCATAACTGGGA
52067303 GGAGTCTTAG
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
67 39 0.48
69 10 0.12
71 33 0.40
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (69 bp):
CTGTGAGCCCTAAGATCATAACTGGGAACCTTAGCTCTCGTAACTATTGTTGGGGCTGCGGTATT
AAAC
Found at i:52068320 original size:16 final size:16
Alignment explanation
Indices: 52068299--52068336 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
52068289 GCAAGAATCA
*
52068299 CATGTGCGAACTAGTT
1 CATGTGCGAACTAGCT
52068315 CATGTGCGAACTAGCT
1 CATGTGCGAACTAGCT
52068331 CATGTG
1 CATGTG
52068337 AATCTTTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (16 bp):
CATGTGCGAACTAGCT
Found at i:52071454 original size:39 final size:39
Alignment explanation
Indices: 52071373--52071535 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
52071363 TATGGTAACC
** * * *
52071373 CGCACAAACGCCTTCGAGACTTAACCAGGATATCACAACT
1 CGCACAATTGCCTTCG-GGCTTAGCCCGGATATCACAACT
* *
52071413 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
52071452 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
52071491 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
52071530 CGCACA
1 CGCACA
52071536 TTCATTCACA
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 99 0.88
40 14 0.12
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:52084041 original size:15 final size:15
Alignment explanation
Indices: 52084021--52084067 Score: 85
Period size: 15 Copynumber: 3.1 Consensus size: 15
52084011 ATATCCTAGC
52084021 TTATACATCCATAGG
1 TTATACATCCATAGG
*
52084036 TTATACATCCACAGG
1 TTATACATCCATAGG
52084051 TTATACATCCATAGG
1 TTATACATCCATAGG
52084066 TT
1 TT
52084068 CAAGTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (15 bp):
TTATACATCCATAGG
Found at i:52084361 original size:2 final size:2
Alignment explanation
Indices: 52084354--52084380 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
52084344 TGGCCGAATG
52084354 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
52084381 TAACAAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52086387 original size:20 final size:20
Alignment explanation
Indices: 52086350--52086387 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52086340 TGTGGATTCC
*
52086350 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGCCTTGGG
*
52086370 ACACGCCCGTGTTCCTTG
1 ACACGCCCGTGTGCCTTG
52086388 TCCGTGGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.34, G:0.32, T:0.24
Consensus pattern (20 bp):
ACACGCCCGTGTGCCTTGGG
Found at i:52091533 original size:39 final size:39
Alignment explanation
Indices: 52091402--52091592 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
52091392 GGATATAACG
* ** **
52091402 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
52091442 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
52091482 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
52091520 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
52091560 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
52091593 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:52091535 original size:78 final size:80
Alignment explanation
Indices: 52091442--52091592 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
52091432 GGTTATAGCG
* * * *
52091442 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
52091504 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
52091520 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
52091585 AGCCCGGA
66 AGCCCGGA
52091593 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:52106793 original size:29 final size:29
Alignment explanation
Indices: 52106726--52106804 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
52106716 CTTAATAATC
*
52106726 AACCACGCACACTTAGTGCCATGTACTTTA
1 AACC-CGCACACTTAGTGCCATGCACTTTA
**
52106756 AACTTGCACACTTAGTGCCATGCA-TTTCA
1 AACCCGCACACTTAGTGCCATGCACTTT-A
* *
52106785 AGCCCGCACATTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
52106805 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 3 0.07
29 35 0.85
30 3 0.07
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCACTTTA
Found at i:52113976 original size:32 final size:32
Alignment explanation
Indices: 52113940--52114002 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
52113930 TCTTTACTTA
52113940 GTAAATATGCATTTTACTGATCCTTGTTTACC
1 GTAAATATGCATTTTACTGATCCTTGTTTACC
52113972 GTAAATATGCATTTTACTGATCCTTGTTTAC
1 GTAAATATGCATTTTACTGATCCTTGTTTAC
52114003 TAAGGGTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.44
Consensus pattern (32 bp):
GTAAATATGCATTTTACTGATCCTTGTTTACC
Found at i:52118472 original size:40 final size:39
Alignment explanation
Indices: 52118374--52118515 Score: 155
Period size: 40 Copynumber: 3.6 Consensus size: 39
52118364 ATGATGTCCG
* * *
52118374 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
*
52118413 GGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
52118453 AGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
52118493 GGGCTATGTCCCGAAGGCATTTG
1 -GGCTAAGTCCCGAAGGCATTTG
52118516 AATGAGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
39 3 0.03
40 73 0.83
41 12 0.14
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:52133205 original size:17 final size:17
Alignment explanation
Indices: 52133183--52133216 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
52133173 TCTTGAACCA
52133183 TAAAATGACATTTTTCC
1 TAAAATGACATTTTTCC
52133200 TAAAATGACATTTTTCC
1 TAAAATGACATTTTTCC
52133217 CAGTTAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
TAAAATGACATTTTTCC
Found at i:52136498 original size:5 final size:5
Alignment explanation
Indices: 52136482--52136524 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
52136472 AACCTGTCAG
*
52136482 AAGAA AATAA AAGAA AA-AA ATTAGAA AAGAA AAGAA AAGAA AA
1 AAGAA AAGAA AAGAA AAGAA A--AGAA AAGAA AAGAA AAGAA AA
52136525 ACTTAAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 3 0.09
5 26 0.79
6 1 0.03
7 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (5 bp):
AAGAA
Found at i:52138970 original size:40 final size:40
Alignment explanation
Indices: 52138885--52139035 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
52138875 AATTGAATGA
* * *
52138885 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
52138925 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
52138966 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
52139005 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
52139036 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:52139049 original size:40 final size:40
Alignment explanation
Indices: 52138922--52139051 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
52138912 ATGCTGGAAA
* * * *
52138922 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
52138962 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
52139002 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
52139042 TTATATCCGG
1 TTATATCCGG
52139052 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:52146967 original size:40 final size:40
Alignment explanation
Indices: 52146882--52147032 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
52146872 AATTGAATGA
* * *
52146882 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
52146922 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
52146963 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
52147002 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
52147033 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:52147046 original size:40 final size:40
Alignment explanation
Indices: 52146919--52147048 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
52146909 ATGCTGGAAA
* * * *
52146919 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
52146959 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
52146999 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
52147039 TTATATCCGG
1 TTATATCCGG
52147049 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:52158476 original size:47 final size:47
Alignment explanation
Indices: 52158407--52158647 Score: 349
Period size: 47 Copynumber: 5.1 Consensus size: 47
52158397 AGCCAAGGCA
*
52158407 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
52158454 AATGTGATGAATGTGAACATGCACATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATG--CATATATGTGATAAGGCCGAATGGCC
*
52158503 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
52158550 AATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * ** *
52158597 AATGTGATGAACGTGAA-AGTGTATATATGTGGTAAATCCGAATGGCT
1 AATGTGATGAATGTGAACA-TGCATATATGTGATAAGGCCGAATGGCC
52158644 AATG
1 AATG
52158648 CAAAATGTGT
Statistics
Matches: 178, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 130 0.73
49 47 0.26
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:52158519 original size:96 final size:94
Alignment explanation
Indices: 52158407--52158613 Score: 342
Period size: 96 Copynumber: 2.2 Consensus size: 94
52158397 AGCCAAGGCA
* * *
52158407 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAAC
* *
52158472 ATGCACATATGTGTGATAAGGCCGAATGGCC
66 ATG--CATATATGTGATAAGGCAGAATGGCC
52158503 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAAC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAAC
52158568 ATGCATATATGTGATAAGGCAGAATGGCC
66 ATGCATATATGTGATAAGGCAGAATGGCC
*
52158597 AATGTGATGAACGTGAA
1 AATGTGATGAATGTGAA
52158614 AGTGTATATA
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
94 40 0.38
96 65 0.62
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.25
Consensus pattern (94 bp):
AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAAC
ATGCATATATGTGATAAGGCAGAATGGCC
Found at i:52158604 original size:22 final size:22
Alignment explanation
Indices: 52158483--52158604 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
52158473 TGCACATATG
*
52158483 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
52158505 TGTGATGAATGTG-A-ACAT-GCACATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
*
52158530 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
52158552 TGTGATAAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
52158577 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
52158599 TGTGAT
1 TGTGAT
52158605 GAACGTGAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 36
0.65 0.04 0.31
Matches are distributed among these distances:
22 22 0.29
23 20 0.26
24 19 0.25
25 16 0.21
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:52160519 original size:39 final size:40
Alignment explanation
Indices: 52160474--52160588 Score: 101
Period size: 40 Copynumber: 2.9 Consensus size: 40
52160464 CACCGGTATA
52160474 AAGCCTGCTAGGCCTAAGCCTG-TATTT-TACACCAGCACA-
1 AAGCCTGCTAGGCCTAAGCCTGAT-TTTATACACCAGCA-AT
* * * * *
52160513 AGGCCTGATAGACTCAAAGTCTGATTTTATACACCAGCAAT
1 AAGCCTGCTAGGC-CTAAGCCTGATTTTATACACCAGCAAT
* * * *
52160554 AAGCCTGCTAGGCATAAGCCCGATTTAATTCACCA
1 AAGCCTGCTAGGCCTAAGCCTGATTTTATACACCA
52160589 ATACAAGGCT
Statistics
Matches: 58, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
39 10 0.17
40 27 0.47
41 21 0.36
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (40 bp):
AAGCCTGCTAGGCCTAAGCCTGATTTTATACACCAGCAAT
Found at i:52162924 original size:41 final size:41
Alignment explanation
Indices: 52162879--52162976 Score: 178
Period size: 41 Copynumber: 2.4 Consensus size: 41
52162869 AACGGGCCTA
**
52162879 CTCACACAAGCTGTCAGTCAAGATGTAGCTACTCGGTGCTG
1 CTCACACAAGCTGTCAGTCAAGATGTAGCTACTCAATGCTG
52162920 CTCACACAAGCTGTCAGTCAAGATGTAGCTACTCAATGCTG
1 CTCACACAAGCTGTCAGTCAAGATGTAGCTACTCAATGCTG
52162961 CTCACACAAGCTGTCA
1 CTCACACAAGCTGTCA
52162977 AGTAACCGAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (41 bp):
CTCACACAAGCTGTCAGTCAAGATGTAGCTACTCAATGCTG
Found at i:52163151 original size:18 final size:18
Alignment explanation
Indices: 52163128--52163167 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
52163118 TTGTCGTTGA
*
52163128 ACTCGTTTGTAGAATTAT
1 ACTCGTTCGTAGAATTAT
52163146 ACTCGTTCGTAGAATTAT
1 ACTCGTTCGTAGAATTAT
52163164 ACTC
1 ACTC
52163168 ATTCACATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (18 bp):
ACTCGTTCGTAGAATTAT
Found at i:52164682 original size:27 final size:27
Alignment explanation
Indices: 52164639--52164705 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
52164629 GACCCCGGTT
** *
52164639 TGTAAAATTACCGAAATACCTTTGTAG
1 TGTAAAATTACTAAAATACCCTTGTAG
52164666 TGTAAAATTACTAAAATACCCTTGTAG
1 TGTAAAATTACTAAAATACCCTTGTAG
* *
52164693 GGTAAAATGACTA
1 TGTAAAATTACTA
52164706 TTTTGCCCTT
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:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACTAAAATACCCTTGTAG
Found at i:52165107 original size:22 final size:22
Alignment explanation
Indices: 52165059--52165118 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
52165049 ACAATCTGAT
*
52165059 TATGGCTCTATGCCAACCTAAA
1 TATGGCTCTGTGCCAACCTAAA
* * * *
52165081 AATGGCTCTGTGCCATCTTAAC
1 TATGGCTCTGTGCCAACCTAAA
*
52165103 TATGGCTTTGTGCCAA
1 TATGGCTCTGTGCCAA
52165119 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTAAA
Found at i:52166707 original size:13 final size:13
Alignment explanation
Indices: 52166691--52166715 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52166681 TTATTCTATT
52166691 TTAATTATTTTAG
1 TTAATTATTTTAG
52166704 TTAATTATTTTA
1 TTAATTATTTTA
52166716 ATTTTTTTAT
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTAATTATTTTAG
Found at i:52167475 original size:45 final size:46
Alignment explanation
Indices: 52167394--52167508 Score: 135
Period size: 45 Copynumber: 2.5 Consensus size: 46
52167384 ATGATTGAAG
* * * *
52167394 GATGCCATATTGTCTTTCAACTATAGTCTTAATCATTCTCG-TCTT
1 GATGTCATAGTGTATTTCAACCATAGTCTTAATCATTCTCGCTCTT
*
52167439 GATAG-CATAGTGTATTTCAACCATAGTCTTATTCATTCTCGTCTCTT
1 GAT-GTCATAGTGTATTTCAACCATAGTCTTAATCATTCTCG-CTCTT
* *
52167486 GATGTCATAGTATGTTTCAACCA
1 GATGTCATAGTGTATTTCAACCA
52167509 GGGTCTTGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
45 35 0.58
46 2 0.03
47 23 0.38
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (46 bp):
GATGTCATAGTGTATTTCAACCATAGTCTTAATCATTCTCGCTCTT
Found at i:52167515 original size:47 final size:45
Alignment explanation
Indices: 52167408--52167515 Score: 119
Period size: 47 Copynumber: 2.4 Consensus size: 45
52167398 CCATATTGTC
* * *
52167408 TTTCAACTATAGTCTTAATCATTCTCGTCTTGATAGCATAGTGTA
1 TTTCAACCAGAGTCTTAATCATTCTCGTCTTGATAGCATAGTATA
* * *
52167453 TTTCAACCATAGTCTTATTCATTCTCGTCTCTTGAT-GTCATAGTATG
1 TTTCAACCAGAGTCTTAATCATTCTCG--TCTTGATAG-CATAGTATA
*
52167500 TTTCAACCAGGGTCTT
1 TTTCAACCAGAGTCTT
52167516 GTACATTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
45 25 0.46
46 1 0.02
47 28 0.52
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (45 bp):
TTTCAACCAGAGTCTTAATCATTCTCGTCTTGATAGCATAGTATA
Found at i:52171215 original size:27 final size:27
Alignment explanation
Indices: 52171173--52171226 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
52171163 GTGTCATGTG
* *
52171173 AAATTGAATGACAAATTATTGTTACAT
1 AAATTGAATGACAAATTACTATTACAT
**
52171200 AAATTGAATGTTAAATTACTATTACAT
1 AAATTGAATGACAAATTACTATTACAT
52171227 GGGTTGTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (27 bp):
AAATTGAATGACAAATTACTATTACAT
Found at i:52171551 original size:49 final size:50
Alignment explanation
Indices: 52171473--52171705 Score: 254
Period size: 49 Copynumber: 4.7 Consensus size: 50
52171463 ATCTATTGTG
*
52171473 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
52171523 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * ** * * **
52171573 CGATCACGCGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
52171623 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
52171673 -GGTCCCATGTGTAATGCTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
52171706 TGCATACCAG
Statistics
Matches: 148, Mismatches: 33, Indels: 5
0.80 0.18 0.03
Matches are distributed among these distances:
49 69 0.47
50 44 0.30
51 35 0.24
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:52171664 original size:101 final size:100
Alignment explanation
Indices: 52171482--52171705 Score: 274
Period size: 101 Copynumber: 2.2 Consensus size: 100
52171472 GAGGTCACAT
*
52171482 GTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGTAGTACTAAGTGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCACATGTGTAGTACTAAGTGT
**
52171547 AGGCTACTATGCGTACCCGATAACTTCGATCACGC
66 AGGCTACTACACGTACCCGATAACTTCGATCACGC
* ** *
52171582 GTGTAGTACTATGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAATT-GGTCACATGTGTAGTACTAAGT
* * * * **
52171646 GTAGGCTACTACATGTACCGGATAA-TT-GGTCCCAT
64 GTAGGCTACTACACGTACCCGATAACTTCGATCACGC
* *
52171681 GTGTAATGCTAAGTGCAGGCTACTA
1 GTGTAGTACTAAGTGCAGGCTACTA
52171706 TGCATACCAG
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
99 27 0.25
100 38 0.36
101 41 0.39
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCACATGTGTAGTACTAAGTGT
AGGCTACTACACGTACCCGATAACTTCGATCACGC
Found at i:52171745 original size:150 final size:150
Alignment explanation
Indices: 52171473--52171751 Score: 366
Period size: 150 Copynumber: 1.9 Consensus size: 150
52171463 ATCTATTGTG
* * * *
52171473 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGTAGT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCCCATGTGTAAT
* * * ** * *
52171538 ACTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCACGCGTGTAGTACTATGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCATACCAGATAACTTCGATCACAAGTGTAGAAATATGTGCAGGCT
52171603 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
* * *
52171623 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATAATTGGTCCCATGTGTAAT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCCCATGTGTAAT
* *
52171688 GCTAAGTGCAGGCTACTATGCATACCAGATAGCCTT-G-TCTACAAGTGT-GAAAATATGTGCAG
66 ACTAAGTGCAGGCTACTATGCATACCAGATA-ACTTCGATC-ACAAGTGTAG-AAATATGTGCAG
52171750 GC
128 GC
52171752 AACTGAGTAT
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
149 3 0.03
150 104 0.95
151 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (150 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCCCATGTGTAAT
ACTAAGTGCAGGCTACTATGCATACCAGATAACTTCGATCACAAGTGTAGAAATATGTGCAGGCT
ACTACGTGTATCAGATGGTT
Found at i:52175326 original size:19 final size:19
Alignment explanation
Indices: 52175302--52175340 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
52175292 CGGGTTACTT
52175302 AGAAAATATCTTCTCAAAA
1 AGAAAATATCTTCTCAAAA
52175321 AGAAAATATCTTCTCAAAA
1 AGAAAATATCTTCTCAAAA
52175340 A
1 A
52175341 ATATATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.26
Consensus pattern (19 bp):
AGAAAATATCTTCTCAAAA
Found at i:52182143 original size:29 final size:29
Alignment explanation
Indices: 52182110--52182241 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
52182100 GTGACGAGAT
*
52182110 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
52182139 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
52182168 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
52182197 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
52182226 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
52182242 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:52189959 original size:29 final size:29
Alignment explanation
Indices: 52189926--52190057 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
52189916 GTGACGAGAT
*
52189926 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
52189955 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
52189984 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
52190013 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
52190042 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
52190058 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:52192843 original size:27 final size:27
Alignment explanation
Indices: 52192813--52192964 Score: 207
Period size: 27 Copynumber: 5.6 Consensus size: 27
52192803 AAAGTATCCC
52192813 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* * *
52192840 CGATTTATAGAATTACTATTTTACCAT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
52192867 TGATTTACAAAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
* *
52192894 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
52192921 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
52192948 CGATTTACAAAATTACT
1 CGATTTACAGAATTACT
52192965 AAAATACCCT
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 104 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (27 bp):
CGATTTACAGAATTACTGTTTTACCCT
Found at i:52192854 original size:54 final size:53
Alignment explanation
Indices: 52192814--52192965 Score: 234
Period size: 54 Copynumber: 2.8 Consensus size: 53
52192804 AAGTATCCCC
*
52192814 GATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCATT
1 GATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACC-CT
*
52192868 GATTTACAAAATTA-TCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTT
1 GATTTACAGAATTACT-GTTTTACCCTCGATTTATAGAATTACTATTTTACCC-T
* *
52192922 GATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA
1 GATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTA
52192966 AAATACCCTT
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
53 1 0.01
54 88 0.98
55 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.43
Consensus pattern (53 bp):
GATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCT
Found at i:52192906 original size:81 final size:81
Alignment explanation
Indices: 52192813--52192962 Score: 237
Period size: 81 Copynumber: 1.9 Consensus size: 81
52192803 AAAGTATCCC
* * *
52192813 CGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCATTGATTTACAAA
1 CGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACTATTTTACCATCGATTTACAAA
52192878 ATTATCGTTTTACCCT
66 ATTATCGTTTTACCCT
* * * *
52192894 CGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAA
1 CGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACTATTTTACCATCGATTTACAAA
52192959 ATTA
66 ATTA
52192963 CTAAAATACC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.43
Consensus pattern (81 bp):
CGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACTATTTTACCATCGATTTACAAA
ATTATCGTTTTACCCT
Found at i:52192973 original size:54 final size:54
Alignment explanation
Indices: 52192814--52193028 Score: 227
Period size: 54 Copynumber: 4.0 Consensus size: 54
52192804 AAGTATCCCC
* * *** *
52192814 GATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCATT
1 GATTTACAAAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTT
* ***
52192868 GATTTACAAAATTA-TCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTT
1 GATTTACAAAATTACT-GTTTTACCCTCGATTTATAAAATTACTAAAATACCCTT
* *
52192922 GATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
1 GATTTACAAAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTT
* * **** *
52192976 GGTATACAAAATTACTAAAATACCCTCGA-TTAGTAAAATTACCAAAATACCCT
1 GATTTACAAAATTACTGTTTTACCCTCGATTTA-TAAAATTACTAAAATACCCT
52193029 GGTCTGTAAA
Statistics
Matches: 141, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
53 4 0.03
54 136 0.96
55 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (54 bp):
GATTTACAAAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTT
Found at i:52192973 original size:81 final size:81
Alignment explanation
Indices: 52192794--52193006 Score: 216
Period size: 81 Copynumber: 2.6 Consensus size: 81
52192784 CTCGACTTGT
* * * *
52192794 AAAATTACCAAAGTATCCC-CGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTA
1 AAAATTACTAAAATA-CCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACTA
*
52192858 TTTTACCATTGATTTAC
65 TTTTACCATCGATTTAC
** * *
52192875 AAAATTATCGT--TTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACT
1 AAAATTA-C-TAAAATACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACT
* *
52192938 GTTTTACCCTCGATTTAC
64 ATTTTACCATCGATTTAC
* * * * ***
52192956 AAAATTACTAAAATACCCTTGGTATACAAAATTACTAAAATACCCTCGATT
1 AAAATTACTAAAATACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
52193007 AGTAAAATTA
Statistics
Matches: 106, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
79 1 0.01
80 4 0.04
81 100 0.94
82 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACTAT
TTTACCATCGATTTAC
Found at i:52193076 original size:80 final size:81
Alignment explanation
Indices: 52192956--52193162 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 81
52192946 CTCGATTTAC
* * * *
52192956 AAAATTACTAAAATACCCTTGGTATACAAAATTACTAAAATACCCTCGA-TTAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCC-CGAGTTAGTAAAATTACCA
52193020 AAATACC-CTGGTCTGT
65 AAATACCACTGGTCTGT
* * * * *
52193036 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAGTTACCAA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCGAGTTAGTAAAATTACCAA
*
52193101 AATACCACTGGTTTGT
66 AATACCACTGGTCTGT
* ** ** *
52193117 GAAATTACCGAAATA-CCCTCAATTTCTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCCT-GGTTTATAAAATTACCAAAATACCCC
52193163 TGATTTACAA
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 2 0.02
80 63 0.59
81 42 0.39
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCGAGTTAGTAAAATTACCAA
AATACCACTGGTCTGT
Found at i:52193113 original size:54 final size:53
Alignment explanation
Indices: 52192956--52193266 Score: 205
Period size: 54 Copynumber: 5.7 Consensus size: 53
52192946 CTCGATTTAC
* * * ** * * *
52192956 AAAATTACTAAAATACCCTTGGTATACAAAATTACTAAAATACC-CTCGATTAGT
1 AAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCACT-GGTTTGT
* * * * *
52193010 AAAATTACCAAAATACCCTGGTCTGTAAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGT
*
52193063 AAAATTACCAAAATACCCCTAGTTTGTAAAGTTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGT
* * * * * * **
52193117 GAAATTACCGAAATACCCTCAATTTCTAAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCACTGGTTTGT
* * * * * **
52193171 AAAATTA-TAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACCA-AAATACCC-T-AGTTTGT-AAAATTACCA-AAATACCACTGGTTTGT
** * * *
52193227 AAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 AAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAA
52193267 CACCCTTGTA
Statistics
Matches: 210, Mismatches: 38, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
53 45 0.21
54 113 0.54
55 13 0.06
56 38 0.18
57 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGT
Found at i:52193151 original size:81 final size:81
Alignment explanation
Indices: 52192983--52193167 Score: 216
Period size: 81 Copynumber: 2.3 Consensus size: 81
52192973 CTTGGTATAC
* * * *
52192983 AAAATTACTAAAATA-CCCTCGATTAGTAAAATTACCAAAATACCCTGGTCTGTAAAATTGCTAA
1 AAAATTACCAAAATACCCCTAGATTAGTAAAATTACCAAAATACCCTGGTCTGTAAAATTACCAA
** *
52193047 AATACCCCTGGTTTGT
66 AATACCCCTAATTTCT
* * * * *
52193063 AAAATTACCAAAATACCCCTAG-TTTGTAAAGTTACCAAAATACCACTGGTTTGTGAAATTACCG
1 AAAATTACCAAAATACCCCTAGATTAGTAAAATTACCAAAATACC-CTGGTCTGTAAAATTACCA
52193127 AAATA-CCCTCAATTTCT
65 AAATACCCCT-AATTTCT
52193144 AAAATTACCAAAATACCCCT-GATT
1 AAAATTACCAAAATACCCCTAGATT
52193168 TACAAAATTA
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
80 39 0.44
81 50 0.56
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAGATTAGTAAAATTACCAAAATACCCTGGTCTGTAAAATTACCAA
AATACCCCTAATTTCT
Found at i:52193248 original size:27 final size:27
Alignment explanation
Indices: 52192915--52193251 Score: 184
Period size: 27 Copynumber: 12.4 Consensus size: 27
52192905 ATTACTATTT
* * ****
52192915 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
52192942 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*
52192969 TACCCTTGGTATACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * * *
52192996 TACCC-TCGATTAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACTAAAA
* ** *
52193023 TACCC-TGGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* ** *
52193049 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * ** * *
52193076 TACCCCTAGTTTGTAAAGTTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*** **
52193103 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTACAAAATTACTAAAA
*** *
52193130 TACCCTCAATTT-CTAAAATTACCAAAA
1 TACCCTTGGTTTAC-AAAATTACTAAAA
* *
52193157 TACCCCTGATTTACAAAATTA-TAGAAA
1 TACCCTTGGTTTACAAAATTACTA-AAA
*
52193184 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACTA-AAA
* *
52193213 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
52193240 TACCCTTGGTTT
1 TACCCTTGGTTT
52193252 GTAGATTTAC
Statistics
Matches: 253, Mismatches: 45, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
26 23 0.09
27 200 0.79
28 9 0.04
29 21 0.08
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Found at i:52194262 original size:25 final size:26
Alignment explanation
Indices: 52194136--52194287 Score: 254
Period size: 26 Copynumber: 5.9 Consensus size: 26
52194126 ATGGAAGAAG
52194136 TTGAAAAGGGCTTATGCCCCAGTTTA
1 TTGAAAAGGGCTTATGCCCCAGTTTA
*
52194162 TCGAAAAGGGCTTATGCCCCAGTTTA
1 TTGAAAAGGGCTTATGCCCCAGTTTA
52194188 TTGAAAAGGGCTTATGCCCCAGTTTA
1 TTGAAAAGGGCTTATGCCCCAGTTTA
***
52194214 CCAAAAAGGGCTTATGCCCCAGTTTA
1 TTGAAAAGGGCTTATGCCCCAGTTTA
52194240 TTGAAAAGGGCTT-TGCCCCAGTTTA
1 TTGAAAAGGGCTTATGCCCCAGTTTA
52194265 TTGAAAAGGGCTT-TGCCCCAGTT
1 TTGAAAAGGGCTTATGCCCCAGTT
52194288 ATTAAAGAGG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 35 0.30
26 83 0.70
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (26 bp):
TTGAAAAGGGCTTATGCCCCAGTTTA
Found at i:52194544 original size:31 final size:31
Alignment explanation
Indices: 52194505--52194575 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
52194495 CGTTTACAGT
52194505 AAAGGCTTCGGCCCAGAGATATGATTTATGA
1 AAAGGCTTCGGCCCAGAGATATGATTTATGA
* *
52194536 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGAGATATGATTTATGA
52194567 AAAGGCTTC
1 AAAGGCTTC
52194576 AGCCTAGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGAGATATGATTTATGA
Found at i:52197993 original size:40 final size:40
Alignment explanation
Indices: 52197781--52197986 Score: 344
Period size: 40 Copynumber: 5.2 Consensus size: 40
52197771 AACCCAAGTA
* *
52197781 CCTTCGGGATTTAG-CCGGATATAGCAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-AGCACAAATG
*
52197820 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
52197860 CCTTCGGGACTTAGCCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
52197900 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
52197940 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
52197980 CCTTCGG
1 CCTTCGG
52197987 ATCTTAGTCC
Statistics
Matches: 158, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.09
40 144 0.91
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:52199383 original size:13 final size:13
Alignment explanation
Indices: 52199365--52199390 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52199355 ATTTTTATTT
52199365 TTAACATAAAATA
1 TTAACATAAAATA
52199378 TTAACATAAAATA
1 TTAACATAAAATA
52199391 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:52208901 original size:16 final size:16
Alignment explanation
Indices: 52208880--52208919 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
52208870 TCTTAATTTA
*
52208880 TTTTTTTGTTTTT-GT
1 TTTTTTTATTTTTGGT
52208895 TTATTTTTATTTTTGGT
1 TT-TTTTTATTTTTGGT
52208912 TTTTTTTA
1 TTTTTTTA
52208920 GCCCGGGCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 16 0.73
17 4 0.18
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.82
Consensus pattern (16 bp):
TTTTTTTATTTTTGGT
Found at i:52210919 original size:40 final size:40
Alignment explanation
Indices: 52210845--52211065 Score: 356
Period size: 40 Copynumber: 5.6 Consensus size: 40
52210835 AACCCAAGTA
* * *
52210845 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
52210884 CTTTCGGGACTTAGCCCGGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
52210924 CCTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
52210964 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
52211004 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
52211044 CCTTC-GGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
52211066 CATCGAATAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 29 0.17
40 141 0.83
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:52212442 original size:13 final size:13
Alignment explanation
Indices: 52212424--52212449 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52212414 TATTTTATTT
52212424 TTAACATAAAATA
1 TTAACATAAAATA
52212437 TTAACATAAAATA
1 TTAACATAAAATA
52212450 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:52217771 original size:40 final size:40
Alignment explanation
Indices: 52217709--52217891 Score: 280
Period size: 40 Copynumber: 4.6 Consensus size: 40
52217699 AACCCAAGTA
* *
52217709 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
52217748 CCTTCGGGTCTTAACTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52217788 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52217828 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
*
52217869 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
52217892 CATCCGAATA
Statistics
Matches: 132, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 11 0.08
40 93 0.70
41 28 0.21
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:52219477 original size:40 final size:39
Alignment explanation
Indices: 52219419--52219610 Score: 140
Period size: 40 Copynumber: 4.8 Consensus size: 39
52219409 GGATATAGCG
* * * *
52219419 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTG
1 ACTCGCACAATTGCCTTCGGGACATAGCCCGGTT-TAGTA
* *
52219459 ATTCGCACAATTGCCTTCGGGA-ATTAGCCCGGATTTAATA
1 ACTCGCACAATTGCCTTCGGGACA-TAGCCCGG-TTTAGTA
* * *
52219499 ACTCGCACGAA-TGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCAC-AATTGCCTTCGGGACATAGCCCGG-TTTAGTA
* * *
52219539 ACTCGCACAAATGCCTTCGGG--ATTGACCCGGATTTAGTC
1 ACTCGCACAATTGCCTTCGGGACATAG-CCCGG-TTTAGTA
* ** *
52219578 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAATTGCCTTCGGGACATAGCCCGG
52219611 ACACCATTCG
Statistics
Matches: 121, Mismatches: 22, Indels: 17
0.76 0.14 0.11
Matches are distributed among these distances:
38 1 0.01
39 15 0.12
40 94 0.78
41 9 0.07
42 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
ACTCGCACAATTGCCTTCGGGACATAGCCCGGTTTAGTA
Found at i:52219531 original size:80 final size:79
Alignment explanation
Indices: 52219419--52219610 Score: 215
Period size: 80 Copynumber: 2.4 Consensus size: 79
52219409 GGATATAGCG
* * * * * * *
52219419 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGG-ATT
52219484 -AGCCCGGATTTAATA
65 GA-CCCGGATTTAATA
* * *
52219499 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGATTG
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGATTG
* *
52219564 ACCCGGATTTAGTC
66 ACCCGGATTTAATA
* * *
52219578 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
52219611 ACACCATTCG
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 16 0.17
80 78 0.83
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGATTG
ACCCGGATTTAATA
Found at i:52227499 original size:40 final size:39
Alignment explanation
Indices: 52227441--52227633 Score: 140
Period size: 40 Copynumber: 4.8 Consensus size: 39
52227431 GGATATAGCG
* * * *
52227441 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTG
1 ACTCGCACAATTGCCTTCGGGACATAGCCCGGTT-TAGTA
* *
52227481 ATTCGCACAATTGCCTTCGGGA-ATTAGCCCGGATTTAATA
1 ACTCGCACAATTGCCTTCGGGACA-TAGCCCGG-TTTAGTA
* * *
52227521 ACTCGCACGAA-TGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCAC-AATTGCCTTCGGGACATAGCCCGG-TTTAGTA
* * * *
52227561 ACTCGCACAAATGCCTTCGGGA-GTTGACCCGGATTTAGTC
1 ACTCGCACAATTGCCTTCGGGACATAG-CCCGG-TTTAGTA
* ** *
52227601 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAATTGCCTTCGGGACATAGCCCGG
52227634 ACACCATTCG
Statistics
Matches: 123, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
39 4 0.03
40 90 0.73
41 27 0.22
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
ACTCGCACAATTGCCTTCGGGACATAGCCCGGTTTAGTA
Found at i:52227553 original size:80 final size:80
Alignment explanation
Indices: 52227441--52227633 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
52227431 GGATATAGCG
* * * * * * *
52227441 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
52227506 -AGCCCGGATTTAATA
66 GA-CCCGGATTTAATA
* * * *
52227521 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAGTT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
* *
52227586 GACCCGGATTTAGTC
66 GACCCGGATTTAATA
* * *
52227601 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
52227634 ACACCATTCG
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 67 0.71
81 27 0.29
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
GACCCGGATTTAATA
Found at i:52227622 original size:41 final size:39
Alignment explanation
Indices: 52227483--52227634 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 39
52227473 TTATAGTGAT
* *
52227483 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAATAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * * *
52227523 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* *
52227563 TCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
52227603 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTA-CCCGGA
52227635 CACCATTCGA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
40 67 0.71
41 27 0.29
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:52230753 original size:43 final size:43
Alignment explanation
Indices: 52230698--52230779 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
52230688 GATATATGTG
** *
52230698 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTTGAGCAGTCCGAGTTCATAATGGATGCGA
52230741 GCATCCGAGCTCGTTGAGCAGTCCGAGTTCATAATGGAT
1 GCATCCGAGCTCGTTGAGCAGTCCGAGTTCATAATGGAT
52230780 ACGATACATG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGCAGTCCGAGTTCATAATGGATGCGA
Found at i:52235112 original size:39 final size:39
Alignment explanation
Indices: 52235062--52235161 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
52235052 GACTTAATGT
*
52235062 CTAGCAGGCCTCATGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCATGCCGGTGATAAATTCAAGTTTATAC
* *
52235101 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAAGTTTATAC
1 CTAGCAGGCCTCATGCCGGTGATAAATTCAAGTTTATAC
*
52235140 CTAGCAGG-CTAATTGCCGGTGA
1 CTAGCAGGCCTCA-TGCCGGTGA
52235162 AATAATAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 2 0.04
39 53 0.96
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (39 bp):
CTAGCAGGCCTCATGCCGGTGATAAATTCAAGTTTATAC
Found at i:52238950 original size:29 final size:28
Alignment explanation
Indices: 52238918--52239020 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
52238908 GTGACGAGAT
* *
52238918 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
52238947 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
52238976 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
52239005 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52239021 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:52241362 original size:40 final size:40
Alignment explanation
Indices: 52241261--52241412 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
52241251 TCGAATGGTG
* * *
52241261 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
52241302 TCCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
52241342 ACCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
52241382 TCCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
52241413 ATCACTATAA
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 67 0.72
41 26 0.28
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52241398 original size:80 final size:81
Alignment explanation
Indices: 52241262--52241412 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 81
52241252 CGAATGGTGT
* * * *
52241262 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCAAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
52241327 GTGCGAGTTACCAAAA
66 GTGCGAGTTACCAAAA
* * * *
52241343 CCGGGTTAAGTCCCAAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCAAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAAT
52241406 TGTGCGA
65 TGTGCGA
52241413 ATCACTATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.02
80 36 0.59
81 24 0.39
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (81 bp):
CCGGGCTAAGTCCCAAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
GTGCGAGTTACCAAAA
Found at i:52241430 original size:40 final size:39
Alignment explanation
Indices: 52241262--52241454 Score: 147
Period size: 40 Copynumber: 4.8 Consensus size: 39
52241252 CGAATGGTGT
** * *
52241262 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAA
* * *
52241302 TCCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 -CCGGGCT-AAGTCCCGAAGGCAATTGTGCGAGTTA-CTAAA
* *
52241343 CCGGGTTAAGTCCCAAAGGC-ATTCGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTACTAAA
* * *
52241382 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AA
* * * * * *
52241423 CCAGGCTATGTCCTGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGT
52241455 CGCTATATCC
Statistics
Matches: 123, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
39 6 0.05
40 83 0.67
41 34 0.28
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
Found at i:52241453 original size:80 final size:80
Alignment explanation
Indices: 52241296--52241454 Score: 176
Period size: 80 Copynumber: 2.0 Consensus size: 80
52241286 GTGCTAAGTG
* * * * *
52241296 ACTAAATCCGGGTCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCAAAG
1 ACTAAATCCGGGTCAACTCCCGAAGGCAATTGTGCGAATCACCAAAACCAGGCTAAGTCCCAAAG
* * *
52241361 GCATTCGTGCGAGTT
66 ACAATCGAGCGAGTT
* * * * **
52241376 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCAGGCTATGTCCTGAA
1 ACTAAATCCGGGTC-AACTCCCGAAGGCAATTGTGCGAATCACCAAAACCAGGCTAAGTCCCAAA
52241440 GACAATCGAGCGAGT
65 GACAATCGAGCGAGT
52241455 CGCTATATCC
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
79 1 0.02
80 63 0.98
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.22
Consensus pattern (80 bp):
ACTAAATCCGGGTCAACTCCCGAAGGCAATTGTGCGAATCACCAAAACCAGGCTAAGTCCCAAAG
ACAATCGAGCGAGTT
Found at i:52248765 original size:28 final size:28
Alignment explanation
Indices: 52248733--52248791 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
52248723 TTCAGCTATG
52248733 TTTGTTTATGTGGCACTTATGTGCAAGT
1 TTTGTTTATGTGGCACTTATGTGCAAGT
52248761 TTTGTTTATGTGGCACTTATGTGCAAGT
1 TTTGTTTATGTGGCACTTATGTGCAAGT
52248789 TTT
1 TTT
52248792 CGTGTATCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.10, G:0.24, T:0.49
Consensus pattern (28 bp):
TTTGTTTATGTGGCACTTATGTGCAAGT
Found at i:52253434 original size:19 final size:19
Alignment explanation
Indices: 52253407--52253443 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52253397 TTACACGGCT
*
52253407 AGAGGACATGGGCGTGTCG
1 AGAGCACATGGGCGTGTCG
*
52253426 AGAGCACATGGGTGTGTC
1 AGAGCACATGGGCGTGTC
52253444 CCCTGTCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.16, G:0.43, T:0.19
Consensus pattern (19 bp):
AGAGCACATGGGCGTGTCG
Found at i:52253487 original size:24 final size:22
Alignment explanation
Indices: 52253430--52253486 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
52253420 GTGTCGAGAG
*
52253430 CACATGGGTGTGTCCCCTGTCT
1 CACACGGGTGTGTCCCCTGTCT
52253452 CACACGGGTGTGTCCCCTGTCT
1 CACACGGGTGTGTCCCCTGTCT
52253474 CACACGGGTGTGT
1 CACACGGGTGTGT
52253487 GACTTTGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.11, C:0.32, G:0.30, T:0.28
Consensus pattern (22 bp):
CACACGGGTGTGTCCCCTGTCT
Found at i:52265479 original size:29 final size:29
Alignment explanation
Indices: 52265446--52265529 Score: 159
Period size: 29 Copynumber: 2.9 Consensus size: 29
52265436 ACGAGATTGG
52265446 CACTAAGTGTGCATGCTGGAAATATATGA
1 CACTAAGTGTGCATGCTGGAAATATATGA
*
52265475 CACTAAGTGTGCATGCTGGAAATATATGG
1 CACTAAGTGTGCATGCTGGAAATATATGA
52265504 CACTAAGTGTGCATGCTGGAAATATA
1 CACTAAGTGTGCATGCTGGAAATATA
52265530 CAGCACTGGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (29 bp):
CACTAAGTGTGCATGCTGGAAATATATGA
Found at i:52265561 original size:58 final size:58
Alignment explanation
Indices: 52265439--52265573 Score: 159
Period size: 58 Copynumber: 2.3 Consensus size: 58
52265429 TACGGTGACG
* *
52265439 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATAAGACACTAAGTGTGCATGCTCGAA
* **
52265496 ATATATGGCACTAAGTGTGCATGCTGGAAATATACAG-CACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATA-AGACACTAAGTGTGC-ATGCTCGAA
* * *
52265554 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
52265574 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
57 3 0.05
58 61 0.92
59 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATAAGACACTAAGTGTGCATGCTCGAA
Found at i:52270416 original size:29 final size:29
Alignment explanation
Indices: 52270360--52270417 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
52270350 ACACTAGGAA
*
52270360 ATTTTGGGCCGAACTGGGCCGTGTAGGCC
1 ATTTTGGGCCAAACTGGGCCGTGTAGGCC
52270389 ATTTTGGGCCAAACTGGGCCGTGTAGGCC
1 ATTTTGGGCCAAACTGGGCCGTGTAGGCC
52270418 CAATGGGCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (29 bp):
ATTTTGGGCCAAACTGGGCCGTGTAGGCC
Found at i:52271018 original size:28 final size:27
Alignment explanation
Indices: 52270976--52271034 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
52270966 TTGATTGCAT
*
52270976 ACTGTACTGATATGGACTAAGGCCCAG
1 ACTGTACTGAAATGGACTAAGGCCCAG
*
52271003 ACTGTCACTGAAATGGGCTAAGGCCCAG
1 ACTGT-ACTGAAATGGACTAAGGCCCAG
52271031 ACTG
1 ACTG
52271035 CTATTGTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (27 bp):
ACTGTACTGAAATGGACTAAGGCCCAG
Found at i:52271051 original size:33 final size:29
Alignment explanation
Indices: 52270978--52271052 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 29
52270968 GATTGCATAC
* *
52270978 TGTACTGATATGGACTAAGGCCCAGACTG
1 TGTACTGAAATGGGCTAAGGCCCAGACTG
*
52271007 T-CACTGAAATGGGCTAAGGCCCAGACTG
1 TGTACTGAAATGGGCTAAGGCCCAGACTG
52271035 CTATTGTACTGAAATGGG
1 ----TGTACTGAAATGGG
52271053 GCTACGGCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 24 0.65
29 1 0.03
32 1 0.03
33 11 0.30
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (29 bp):
TGTACTGAAATGGGCTAAGGCCCAGACTG
Found at i:52271951 original size:43 final size:43
Alignment explanation
Indices: 52271878--52271963 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
52271868 ATCACATGTA
* *
52271878 TCGCATCCATTATGAACTTAGACCACTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
* * * *
52271921 TCGCATCCATAATGAACTCGGCCCATTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
52271964 CACATATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
Found at i:52274807 original size:99 final size:97
Alignment explanation
Indices: 52274627--52274813 Score: 281
Period size: 96 Copynumber: 1.9 Consensus size: 97
52274617 GGGGTAGAAT
* *
52274627 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCATGTCGATGCCATGTCCCAA
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCATGTCGATGCCATGTCCCAA
52274692 ACATGGTCTTACACTGAC-TATCAAAATTGAG
66 ACATGGTCTTACACTGACATATCAAAATTGAG
52274723 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCGCAT-ATCCGTGCCGATGCCATGT
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CATCAT--GT--CGATGCCATGT
*
52274786 CCCAGACATGGTCTTACACTGACATATC
61 CCCAAACATGGTCTTACACTGACATATC
52274814 TCGTAGCCGA
Statistics
Matches: 82, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
95 4 0.05
96 39 0.48
97 2 0.02
99 33 0.40
100 4 0.05
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (97 bp):
GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCATGTCGATGCCATGTCCCAA
ACATGGTCTTACACTGACATATCAAAATTGAG
Found at i:52274861 original size:46 final size:46
Alignment explanation
Indices: 52274627--52274941 Score: 183
Period size: 46 Copynumber: 6.7 Consensus size: 46
52274617 GGGGTAGAAT
* *
52274627 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATC-CATCA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTAAATCTCGT-A
* * *
52274673 TGTCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCAAAAT-T-G-A
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T--AAATCTCGTA
* * *
52274722 GGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATC-CGT-
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T---AAATCTCGTA
* *
52274773 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ATATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTAAATCTCGTA
*
52274819 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTAAATCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATCTCGTA
* * *
52274864 GGCTGATGCATGTCCCAAACATGTTCTTACATTGGCTCTCATAA--T-GTA
1 -GCCGATGCATGTCCCAGACATG-TCTTACACTGGCT-T-A-AATCTCGTA
*
52274912 G-CAATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
52274942 AGCACACAAA
Statistics
Matches: 219, Mismatches: 29, Indels: 42
0.76 0.10 0.14
Matches are distributed among these distances:
44 17 0.08
45 25 0.11
46 50 0.23
47 47 0.21
48 3 0.01
49 36 0.16
50 38 0.17
51 1 0.00
52 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATCTCGTA
Found at i:52274862 original size:99 final size:96
Alignment explanation
Indices: 52274627--52274849 Score: 266
Period size: 96 Copynumber: 2.3 Consensus size: 96
52274617 GGGGTAGAAT
* *
52274627 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAT--GT--CGATGCCATGT
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCGCAT-ATCCGTGCCGATGCCATGT
*
52274687 CCCAAACATGGTCTTACACTGACTATCAAAATTGAG
64 CCCAAACATGGTCTTACACTGACTATC---ATCGAG
52274723 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATGTCC
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATGTCC
*
52274788 CAGACATGGTCTTACACTGACATATC-TCGTA-
66 CAAACATGGTCTTACACTGAC-TATCATCG-AG
* *
52274819 GCCGATG-CATGTCCTAGACAT-GTCTTACACT
1 GCCGACGCCATGTCCCAGACATGGTCTTACACT
52274850 GGCTTAAATC
Statistics
Matches: 114, Mismatches: 6, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
94 10 0.09
95 17 0.15
96 47 0.41
97 3 0.03
99 33 0.29
100 4 0.04
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (96 bp):
GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATGTCC
CAAACATGGTCTTACACTGACTATCATCGAG
Found at i:52278960 original size:15 final size:15
Alignment explanation
Indices: 52278905--52278962 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
52278895 GAGATGACAT
52278905 GAAAACCAAGATAAA
1 GAAAACCAAGATAAA
** * * *
52278920 GAAGTCTAGGACAAA
1 GAAAACCAAGATAAA
*
52278935 GAAAACTAAGATAAA
1 GAAAACCAAGATAAA
*
52278950 GAAATCCAAGATA
1 GAAAACCAAGATA
52278963 CAATATGATA
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.12
Consensus pattern (15 bp):
GAAAACCAAGATAAA
Found at i:52280210 original size:36 final size:36
Alignment explanation
Indices: 52280170--52280241 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
52280160 TCATCATAAT
*
52280170 TGTACTTTACCTAGAGACCTTGGCATCACATTTAAC
1 TGTACTTTACCCAGAGACCTTGGCATCACATTTAAC
*
52280206 TGTACTTTACCCAGATACCTTGGCATCACATTTAAC
1 TGTACTTTACCCAGAGACCTTGGCATCACATTTAAC
52280242 ATGGTCGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (36 bp):
TGTACTTTACCCAGAGACCTTGGCATCACATTTAAC
Found at i:52282814 original size:43 final size:43
Alignment explanation
Indices: 52282766--52282923 Score: 194
Period size: 43 Copynumber: 3.7 Consensus size: 43
52282756 CATGTATCGC
* *
52282766 ATCCATTATGAACTCGGACCACTCAACGAGCTCGGATGCTCAT
1 ATCCATAATGAACTTGGACCACTCAACGAGCTCGGATGCTCAT
* * ***
52282809 ATCCATAATGAACTTAGACCACTCAACGAGCTCGAATGCTGGC
1 ATCCATAATGAACTTGGACCACTCAACGAGCTCGGATGCTCAT
52282852 ATCCATAATGAACTTGGACCACTCAACGAGCTCGGATGCTACAT
1 ATCCATAATGAACTTGGACCACTCAACGAGCTCGGATGCT-CAT
* * * *
52282896 AT--ATCACGAACTTGAACCACTTAACGAG
1 ATCCATAATGAACTTGGACCACTCAACGAG
52282924 TTTGGACTTC
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
42 22 0.22
43 74 0.76
44 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
ATCCATAATGAACTTGGACCACTCAACGAGCTCGGATGCTCAT
Found at i:52286935 original size:49 final size:49
Alignment explanation
Indices: 52286863--52287094 Score: 286
Period size: 49 Copynumber: 4.7 Consensus size: 49
52286853 TTGGTACGCA
* *
52286863 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACG
* ** * *
52286912 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCAGTACACG
* * ** *
52286962 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCAG
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCAGTACAC-G
* *
52287014 -AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACG
*
52287062 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
52287095 TCACAATAGA
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.01
49 71 0.45
50 48 0.31
51 36 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACG
Found at i:52287085 original size:100 final size:99
Alignment explanation
Indices: 52286863--52287093 Score: 295
Period size: 100 Copynumber: 2.3 Consensus size: 99
52286853 TTGGTACGCA
* * * *
52286863 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCAGTACACGTAGTAGCCTGCACTTA
* *
52286928 GTACTACACACGTGACCTAACCATCTAATACACG
66 GTACTACACACGCGACCTAACCATCCAATACACG
** *
52286962 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCAG-AGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCCAGTACAC-GTAGTAGCCTGCAC
* ** **
52287026 TTAGTACTACACATGCGACC-AATTATCCGGTACACG
63 TTAGTACTACACACGCGACCTAACCATCCAATACACG
52287062 TAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
52287094 CTCACAATAG
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
99 29 0.25
100 45 0.39
101 40 0.35
102 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCAGTACACGTAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCCAATACACG
Found at i:52292922 original size:79 final size:78
Alignment explanation
Indices: 52292754--52292973 Score: 232
Period size: 79 Copynumber: 2.8 Consensus size: 78
52292744 TATTCGAATG
* * * * *
52292754 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGAT-CCAAAGG
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGC-AAG-GACTATATCCGGGCTAAG-TCCCGAAGG
*
52292818 CATTCGTGCGAGTTGCT
62 CATTCGTGCGAGTTGCC
*
52292835 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGGACTATATCCGGGCTAAGTCCCGAAGGCA-
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCAAGGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
52292899 TCTGTGCTAG-TGACC
65 TC-GTGCGAGTTG-CC
* * * *
52292914 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCAAGGA-CTATATCCGGGCTAAGTCCCGAAG
52292974 ATTACTTGAG
Statistics
Matches: 121, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
78 28 0.23
79 62 0.51
80 1 0.01
81 30 0.25
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (78 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCAAGGACTATATCCGGGCTAAGTCCCGAAGGCATT
CGTGCGAGTTGCC
Found at i:52292957 original size:39 final size:38
Alignment explanation
Indices: 52292754--52292973 Score: 194
Period size: 40 Copynumber: 5.6 Consensus size: 38
52292744 TATTCGAATG
* * *
52292754 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-AAGTG-CT
* * * * *
52292795 ATAACCGGACTAAGATCCAAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCAAG-TGCT
*
52292835 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-GACT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTG-CT
* * *
52292874 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCAT-TGTGCAAGTG-CT
* *
52292914 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTGTGCAAGT-GCT
52292953 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
52292974 ATTACTTGAG
Statistics
Matches: 151, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
37 1 0.01
38 15 0.10
39 47 0.31
40 61 0.40
41 27 0.18
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTGCT
Found at i:52294121 original size:14 final size:13
Alignment explanation
Indices: 52294093--52294127 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
52294083 TGGCTTGACC
*
52294093 AAAAATTCTAGAA
1 AAAAATTTTAGAA
52294106 AAAAATTTTAGAA
1 AAAAATTTTAGAA
52294119 AAAGAATTT
1 AAA-AATTT
52294128 ACAAACTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.29
Consensus pattern (13 bp):
AAAAATTTTAGAA
Found at i:52300641 original size:40 final size:41
Alignment explanation
Indices: 52300547--52300767 Score: 214
Period size: 40 Copynumber: 5.6 Consensus size: 41
52300537 TATTCGAATG
*
52300547 ATATCCGGGCTAAG-TCCCGAAGG-ATTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCA-TTCGTGCTA-GTGACT
* * *
52300588 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAG-TGACT
* *
52300628 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
* *
52300668 ATATCCGGGCTAAG-TCCCGAAGGC-GTCTGTGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTC-GTGCTAGTGACT
* * *
52300708 ATATCCGGGCTAAGA-CCCGAAGGCCTT-GTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGA-CT
52300747 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
52300768 ATTACTTGAG
Statistics
Matches: 152, Mismatches: 17, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 15 0.10
40 91 0.60
41 29 0.19
42 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
Found at i:52300717 original size:80 final size:82
Alignment explanation
Indices: 52300547--52300731 Score: 238
Period size: 80 Copynumber: 2.3 Consensus size: 82
52300537 TATTCGAATG
* *
52300547 ATATCCGGGCTAAGTCCCGAAGG-ATTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGG
*
52300611 CATTCGTGCGAGTTGCT
66 CATTCGTGCGAGTTGCC
* *
52300628 ATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAG
* *
52300690 GC-GTCTGTGCTAG-TGACC
65 GCATTC-GTGCGAGTTG-CC
52300708 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
52300732 CTTGTGCAAG
Statistics
Matches: 93, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
79 5 0.05
80 56 0.60
81 31 0.33
82 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (82 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGG
CATTCGTGCGAGTTGCC
Found at i:52308453 original size:40 final size:41
Alignment explanation
Indices: 52308359--52308579 Score: 214
Period size: 40 Copynumber: 5.6 Consensus size: 41
52308349 TATTCGAATG
*
52308359 ATATCCGGGCTAAG-TCCCGAAGG-ACTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCA-TTCGTGCTA-GTGACT
* * *
52308400 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAG-TGACT
* *
52308440 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
* *
52308480 ATATCCGGGCTAAG-TCCCGAAGGC-GTCTGTGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTC-GTGCTAGTGACT
* * *
52308520 ATATCCGGGCTAAGA-CCCGAAGGCCTT-GTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGA-CT
52308559 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
52308580 ATTACTTGAG
Statistics
Matches: 152, Mismatches: 17, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 15 0.10
40 91 0.60
41 29 0.19
42 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
Found at i:52308529 original size:80 final size:82
Alignment explanation
Indices: 52308359--52308550 Score: 238
Period size: 80 Copynumber: 2.4 Consensus size: 82
52308349 TATTCGAATG
* *
52308359 ATATCCGGGCTAAGTCCCGAAGG-ACTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGG
*
52308423 CATTCGTGCGAGTTGCT
66 CATTCGTGCGAGTTGCC
* *
52308440 ATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAG
* *
52308502 GC-GTCTGTGCTAG-TGACC
65 GCATTC-GTGCGAGTTG-CC
52308520 ATATCCGGGCTAAGACCCGAAGGC-C-TTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGC
52308551 AAGTAGTTAT
Statistics
Matches: 99, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.11
80 56 0.57
81 31 0.31
82 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (82 bp):
ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGG
CATTCGTGCGAGTTGCC
Found at i:52322368 original size:27 final size:28
Alignment explanation
Indices: 52322312--52322381 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
52322302 AAATTTGTAC
52322312 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
52322340 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
52322367 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
52322382 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:52322392 original size:27 final size:27
Alignment explanation
Indices: 52322312--52322393 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
52322302 AAATTTGTAC
* *
52322312 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
52322340 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
52322367 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
52322394 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:52331464 original size:40 final size:39
Alignment explanation
Indices: 52331390--52331697 Score: 393
Period size: 40 Copynumber: 7.6 Consensus size: 39
52331380 AACCCAAGTA
* *
52331390 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
*
52331429 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
*
52331469 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
52331512 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* *
52331552 CCTTCAGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
*
52331595 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* * * *
52331635 CCTTCGGGACTTAGCCCGGATATAGGAACTCGTACAAATA
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
52331675 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
52331698 CATCCGAATA
Statistics
Matches: 240, Mismatches: 16, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
39 14 0.06
40 150 0.62
41 2 0.01
43 72 0.30
44 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:52331510 original size:83 final size:81
Alignment explanation
Indices: 52331390--52331697 Score: 478
Period size: 83 Copynumber: 3.8 Consensus size: 81
52331380 AACCCAAGTA
* *
52331390 CCTTCGGGATTTAG-CCGGATATAGC-AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGCAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
52331453 GTCACTAGCACAAATG
66 GTCACTAGCACAAATG
*
52331469 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGCAA--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
52331534 TAGTCACTAGCACAAATG
64 TAGTCACTAGCACAAATG
* * *
52331552 CCTTCAGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGCAA--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
52331617 TAGTCACTAGCACAAATG
64 TAGTCACTAGCACAAATG
* * *
52331635 CCTTCGGGACTTAGCCCGGATATAG-GAACTCGTACAAATACCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
52331698 CATCCGAATA
Statistics
Matches: 214, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
79 13 0.06
80 43 0.20
81 1 0.00
82 1 0.00
83 156 0.73
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (81 bp):
CCTTCGGGACTTAGCCCGGATATAGCAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
GTCACTAGCACAAATG
Found at i:52331630 original size:123 final size:120
Alignment explanation
Indices: 52331390--52331697 Score: 408
Period size: 123 Copynumber: 2.5 Consensus size: 120
52331380 AACCCAAGTA
* *
52331390 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
52331454 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
65 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTA--CGCACAAATG
* * *
52331512 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGGGTATAG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
52331577 -CAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATATAGTC-ACTA-GCACAAATG
65 TC-ACTA---GCACAAATGCCTTCGGGACTTAGCCCGGATATAG-CAACTACGCACAAATG
* * *
52331635 CCTTCGGGACTTAGCCCGGATATAGGAACTCGTACAAATACCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATA-GCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
52331698 CATCCGAATA
Statistics
Matches: 165, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
122 14 0.08
123 112 0.68
124 2 0.01
126 36 0.22
127 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTACGCACAAATG
Found at i:52333305 original size:46 final size:46
Alignment explanation
Indices: 52333237--52333327 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
52333227 TATATATACA
* *
52333237 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* *
52333283 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
52333328 ATATACACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:52333378 original size:49 final size:48
Alignment explanation
Indices: 52333301--52333639 Score: 472
Period size: 47 Copynumber: 7.1 Consensus size: 48
52333291 ACACATTTCG
* * * * * *
52333301 CATTAGCCATTCGGCTTTACCACATATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACA-ATATATGCA-TGTTCACATTCATCA
* *
52333350 CATTGGCCATTCTGCCTTATCAC-ATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
* *
52333397 CATTGGCCATTCGGCCTTATCAC-ATATGTGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
*
52333444 CATTGGCCATTCGGCCTTATCACACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACA-ATATATGCATGTTCACATTCATCA
* *
52333493 CATTGGCCATTCTGCCTTATCAC-ATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
*
52333540 CATTGGCCATTCGGCCTTATCACACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACA-ATATATGCATGTTCACATTCATCA
*
52333589 CATTGGCCATTCGGCCTTATCAC-ACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
52333636 CATT
1 CATT
52333640 TGCCTTGGCT
Statistics
Matches: 266, Mismatches: 19, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
46 1 0.00
47 156 0.59
49 109 0.41
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (48 bp):
CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
Found at i:52333399 original size:47 final size:47
Alignment explanation
Indices: 52333343--52333639 Score: 477
Period size: 47 Copynumber: 6.2 Consensus size: 47
52333333 CACTTCCACG
*
52333343 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
52333390 TTTATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
52333437 TTTATCACATTGGCCATTCGGCCTTATCACACATATGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAT--CACATATATGCATGTTCACA
*
52333486 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
52333533 TTTATCACATTGGCCATTCGGCCTTATCACACATATGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAT--CACATATATGCATGTTCACA
*
52333582 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
52333629 TTCATCACATT
1 TTCATCACATT
52333640 TGCCTTGGCT
Statistics
Matches: 234, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
47 144 0.62
49 90 0.38
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:52333421 original size:96 final size:95
Alignment explanation
Indices: 52333346--52333639 Score: 500
Period size: 96 Copynumber: 3.1 Consensus size: 95
52333336 TTCCACGTTC
* * *
52333346 ATCACATTGGCCATTCTGCCTTAT-CACATATATGCATGTTCACATTTATCACATTGGCCATTCG
1 ATCACATTGGCCATTCGGCCTTATACACATATGTGCATGTTCACATTCATCACATTGGCCATTCG
*
52333410 GCCTTATCACATATGTGCATGTTCACATTT
66 GCCTTATCACATATATGCATGTTCACATTT
52333440 ATCACATTGGCCATTCGGCCTTATCACACATATGTGCATGTTCACATTCATCACATTGGCCATTC
1 ATCACATTGGCCATTCGGCCTTAT-ACACATATGTGCATGTTCACATTCATCACATTGGCCATTC
*
52333505 TGCCTTATCACATATATGCATGTTCACATTT
65 GGCCTTATCACATATATGCATGTTCACATTT
52333536 ATCACATTGGCCATTCGGCCTTATCACACATATGTGCATGTTCACATTCATCACATTGGCCATTC
1 ATCACATTGGCCATTCGGCCTTAT-ACACATATGTGCATGTTCACATTCATCACATTGGCCATTC
* *
52333601 GGCCTTATCACACATATGCATGTTCACATTC
65 GGCCTTATCACATATATGCATGTTCACATTT
52333632 ATCACATT
1 ATCACATT
52333640 TGCCTTGGCT
Statistics
Matches: 190, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
94 23 0.12
96 167 0.88
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (95 bp):
ATCACATTGGCCATTCGGCCTTATACACATATGTGCATGTTCACATTCATCACATTGGCCATTCG
GCCTTATCACATATATGCATGTTCACATTT
Found at i:52333490 original size:143 final size:142
Alignment explanation
Indices: 52333343--52333639 Score: 551
Period size: 143 Copynumber: 2.1 Consensus size: 142
52333333 CACTTCCACG
52333343 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCACATTGGCCATT
1 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCACATTGGCCATT
*
52333408 CGGCCTTAT-CACATATGTGCATGTTCACATTTATCACATTGGCCATTCGGCCTTATCACACATA
66 CGGCCTTATACACATATGTGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
52333472 TGTGCATGTTCACA
131 --TGCATGTTCACA
52333486 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCACATTGGCCATT
1 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCACATTGGCCATT
52333551 CGGCCTTATCACACATATGTGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
66 CGGCCTTAT-ACACATATGTGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
52333616 ATGCATGTTCACA
130 ATGCATGTTCACA
52333629 TTCATCACATT
1 TTCATCACATT
52333640 TGCCTTGGCT
Statistics
Matches: 151, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
143 97 0.64
145 54 0.36
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (142 bp):
TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCACATTGGCCATT
CGGCCTTATACACATATGTGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
TGCATGTTCACA
Found at i:52337526 original size:28 final size:27
Alignment explanation
Indices: 52337495--52337584 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 27
52337485 TCGCATATGC
*
52337495 AGTGCCCACTGACTGATTTCGCACACAT
1 AGTGCCCACT-ACTGATCTCGCACACAT
* * ** *
52337523 AGTGCTCGATTAAAGAACTCGCACACAT
1 AGTGC-CCACTACTGATCTCGCACACAT
*
52337551 AGTGCCTCAACTACTGATCTGGCACACAT
1 AGTGCC-C-ACTACTGATCTCGCACACAT
52337580 AGTGC
1 AGTGC
52337585 TCGGTTGAAG
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
27 1 0.02
28 23 0.49
29 23 0.49
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (27 bp):
AGTGCCCACTACTGATCTCGCACACAT
Found at i:52337576 original size:57 final size:57
Alignment explanation
Indices: 52337494--52337616 Score: 169
Period size: 57 Copynumber: 2.2 Consensus size: 57
52337484 TTCGCATATG
*
52337494 CAGTGCC-C-ACTGACTGATTTCGCACACATAGTGCTCGATTAAAGAACTCGCACACA
1 CAGTGCCTCAACT-ACTGATCTCGCACACATAGTGCTCGATTAAAGAACTCGCACACA
* * * * *
52337550 TAGTGCCTCAACTACTGATCTGGCACACATAGTGCTCGGTTGAAGAACTTGCACACA
1 CAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTAAAGAACTCGCACACA
52337607 CAGTGCCTCA
1 CAGTGCCTCA
52337617 TGATTCCAGC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
56 6 0.10
57 49 0.84
58 3 0.05
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (57 bp):
CAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTAAAGAACTCGCACACA
Found at i:52337688 original size:40 final size:40
Alignment explanation
Indices: 52337644--52337937 Score: 527
Period size: 40 Copynumber: 7.4 Consensus size: 40
52337634 CCTTTGAGGT
* * *
52337644 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
52337684 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
52337724 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
*
52337764 TTAGCCCGGATACATAACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
*
52337804 TTAGCCCAGATACATCACTAGCACGAATGCTCTTC-GGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
52337843 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
*
52337883 TTAGCCCGGATACATCATTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
52337923 TTAGCCCGGATACAT
1 TTAGCCCGGATACAT
52337938 TCGAATAATC
Statistics
Matches: 245, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 38 0.16
40 207 0.84
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
Found at i:52337913 original size:159 final size:160
Alignment explanation
Indices: 52337644--52337937 Score: 545
Period size: 159 Copynumber: 1.8 Consensus size: 160
52337634 CCTTTGAGGT
* * *
52337644 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGAGACTTAGCCCGGATACATCACTAGCACG
1 TTAGCCCAGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACG
52337709 AATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGA
66 AATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGA
52337774 TACATAACTAGCACGAATGCTCTTCGGGAC
131 TACATAACTAGCACGAATGCTCTTCGGGAC
52337804 TTAGCCCAGATACATCACTAGCACGAATGCTCTTCG-GACTTAGCCCGGATACATCACTAGCACG
1 TTAGCCCAGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACG
*
52337868 AATGCTCTTCGGGACTTAGCCCGGATACATCATTAGCACGAATGCTCTTCGGGACTTAGCCCGGA
66 AATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGA
52337933 TACAT
131 TACAT
52337938 TCGAATAATC
Statistics
Matches: 130, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
159 97 0.75
160 33 0.25
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (160 bp):
TTAGCCCAGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACG
AATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGA
TACATAACTAGCACGAATGCTCTTCGGGAC
Found at i:52339710 original size:46 final size:46
Alignment explanation
Indices: 52339642--52339732 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
52339632 TATATATACA
* *
52339642 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* *
52339688 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
52339733 ATATACACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:52339783 original size:49 final size:48
Alignment explanation
Indices: 52339706--52339948 Score: 305
Period size: 47 Copynumber: 5.1 Consensus size: 48
52339696 ACACATTTCG
* * * * * *
52339706 CATTAGCCATTCGGCTTTACCACATATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACA-ATATATGCA-TGTTCACATTCATCA
* *
52339755 CATTGGCCATTCTGCCTTATCAC-ATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
* *
52339802 CATTGGGCATTCGGCCTTATCAC-ATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
* *
52339849 CATTGGCCATTCGACCTTATCACACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACA-ATATATGCATGTTCACATTCATCA
* *
52339898 CATTGGCCATTCAGCCTTATCAC-ACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
52339945 CATT
1 CATT
52339949 TGCCTTGGCT
Statistics
Matches: 173, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
46 1 0.01
47 110 0.64
49 62 0.36
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.35
Consensus pattern (48 bp):
CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
Found at i:52339826 original size:96 final size:96
Alignment explanation
Indices: 52339706--52339948 Score: 289
Period size: 96 Copynumber: 2.5 Consensus size: 96
52339696 ACACATTTCG
* * * *
52339706 CATTAGCCATTCGGCTTTACCACATATATATACACT-TCCACGTTCATCACATTGGCCATTCTG-
1 CATTGGCCATTCGGCCTTATCACA-ATATATACA-TGTCCACATTCATCACATTGGCCATTC-GA
*
52339769 CCTTAT-CACATATATGCATGTTCACATTTATCA
63 CCTTATACACATATATGCATGTTCACATTCATCA
* * * *
52339802 CATTGGGCATTCGGCCTTATCAC-ATATATGCATGTTCACATTTATCACATTGGCCATTCGACCT
1 CATTGGCCATTCGGCCTTATCACAATATATACATGTCCACATTCATCACATTGGCCATTCGACCT
*
52339866 TATCACACATATGTGCATGTTCACATTCATCA
66 TAT-ACACATATATGCATGTTCACATTCATCA
* * * *
52339898 CATTGGCCATTCAGCCTTATCAC-ACATATGCATGTTCACATTCATCACATT
1 CATTGGCCATTCGGCCTTATCACAATATATACATGTCCACATTCATCACATT
52339949 TGCCTTGGCT
Statistics
Matches: 129, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
93 2 0.02
94 36 0.28
96 91 0.71
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.35
Consensus pattern (96 bp):
CATTGGCCATTCGGCCTTATCACAATATATACATGTCCACATTCATCACATTGGCCATTCGACCT
TATACACATATATGCATGTTCACATTCATCA
Found at i:52339848 original size:25 final size:25
Alignment explanation
Indices: 52339771--52339851 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
52339761 CCATTCTGCC
52339771 TTATCACATATATGCATGTTCACAT
1 TTATCACATATATGCATGTTCACAT
** * *
52339796 TTATCACAT-TGGGCA--TTCGGC-C
1 TTATCACATATATGCATGTTC-ACAT
52339818 TTATCACATATATGCATGTTCACAT
1 TTATCACATATATGCATGTTCACAT
52339843 TTATCACAT
1 TTATCACAT
52339852 TGGCCATTCG
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
22 12 0.28
23 5 0.12
24 5 0.12
25 21 0.49
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.38
Consensus pattern (25 bp):
TTATCACATATATGCATGTTCACAT
Found at i:52339944 original size:25 final size:25
Alignment explanation
Indices: 52339867--52339946 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 25
52339857 ATTCGACCTT
52339867 ATCACACATATGTGCATGTTCACATTC
1 ATCACACATA--TGCATGTTCACATTC
*
52339894 AT--CACAT-TGGCCA--TTCAGCCTT-
1 ATCACACATAT-G-CATGTTCA-CATTC
52339916 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
52339941 ATCACA
1 ATCACA
52339947 TTTGCCTTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 20
0.66 0.03 0.31
Matches are distributed among these distances:
22 7 0.17
23 6 0.14
24 11 0.26
25 16 0.38
27 2 0.05
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Done.