Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 371 of 770
Found at i:114156356 original size:24 final size:23
Alignment explanation
Indices: 114156291--114156358 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 23
114156281 AGCTAAAAAT
*
114156291 TGGTAAGCTCATAGAGCTAAGAAT
1 TGGTAAGCTCATAGAGCTAAG-AC
*
114156315 TGGGAAGCTC-TCATGAGCTGAAG-C
1 TGGTAAGCTCAT-A-GAGCT-AAGAC
114156339 TGGTAAGCTCATACGAGCTA
1 TGGTAAGCTCATA-GAGCTA
114156359 TGGTGTGTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
23 2 0.06
24 25 0.69
25 6 0.17
26 3 0.08
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (23 bp):
TGGTAAGCTCATAGAGCTAAGAC
Found at i:114157257 original size:8 final size:8
Alignment explanation
Indices: 114157244--114157285 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
114157234 TATCATTTAT
114157244 TTACTTAA
1 TTACTTAA
114157252 TTACTTAA
1 TTACTTAA
*
114157260 TTAACCT--
1 TT-ACTTAA
114157267 TTACTTAA
1 TTACTTAA
114157275 TTACTTAA
1 TTACTTAA
114157283 TTA
1 TTA
114157286 ACCTTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 3 0.10
7 2 0.07
8 21 0.72
9 3 0.10
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (8 bp):
TTACTTAA
Found at i:114157269 original size:23 final size:23
Alignment explanation
Indices: 114157243--114157292 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
114157233 TTATCATTTA
114157243 TTTACTTAATTACTTAATTAACC
1 TTTACTTAATTACTTAATTAACC
114157266 TTTACTTAATTACTTAATTAACC
1 TTTACTTAATTACTTAATTAACC
114157289 TTTA
1 TTTA
114157293 TAAACTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTACTTAATTACTTAATTAACC
Found at i:114160715 original size:40 final size:40
Alignment explanation
Indices: 114160646--114160785 Score: 244
Period size: 40 Copynumber: 3.4 Consensus size: 40
114160636 AAATTAGATA
114160646 CGATGCCAATGTTCCAGACATAGTCTTACACGTAAAACAAAAGT
1 CGATGCCAATG-TCC---CATAGTCTTACACGTAAAACAAAAGT
114160690 CGATGCCAATGTCCCATAGTCTTACACGTAAAACAAAAGT
1 CGATGCCAATGTCCCATAGTCTTACACGTAAAACAAAAGT
114160730 CGATGCCAATGTCCCATAGTCTTACACGTAAAACAAAAGT
1 CGATGCCAATGTCCCATAGTCTTACACGTAAAACAAAAGT
114160770 CGATGCCAATGTCCCA
1 CGATGCCAATGTCCCA
114160786 GACATGGTCT
Statistics
Matches: 96, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
40 82 0.85
43 3 0.03
44 11 0.11
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (40 bp):
CGATGCCAATGTCCCATAGTCTTACACGTAAAACAAAAGT
Found at i:114162136 original size:35 final size:35
Alignment explanation
Indices: 114162087--114162217 Score: 181
Period size: 35 Copynumber: 3.7 Consensus size: 35
114162077 TAGATGTTAC
* *
114162087 AGTATTGGTGTTGTGGCAGGAAGTTAAATGAATGA
1 AGTATTGATGTTGTGGCAGGATGTTAAATGAATGA
* *
114162122 AGTATTGATTTTGTGGCACGATGTTAAATGAATGA
1 AGTATTGATGTTGTGGCAGGATGTTAAATGAATGA
* * * *
114162157 AGTATTGATGTTGAGGTAGGATGTTAATTGAAAGA
1 AGTATTGATGTTGTGGCAGGATGTTAAATGAATGA
*
114162192 AGTATCGATGTTGTGGCAGGATGTTA
1 AGTATTGATGTTGTGGCAGGATGTTA
114162218 TTTGAAAGAG
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 83 1.00
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.34
Consensus pattern (35 bp):
AGTATTGATGTTGTGGCAGGATGTTAAATGAATGA
Found at i:114166340 original size:42 final size:42
Alignment explanation
Indices: 114166283--114166406 Score: 196
Period size: 42 Copynumber: 3.0 Consensus size: 42
114166273 TAACAGTGAT
* *
114166283 ATATCAGGCTTATTGCTTAGCAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCTGGTGTATG
*
114166325 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCTAGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCTGGTGTATG
* *
114166367 ATATCAAGCTTATTGCCTGGCAGGCTTT-ATGCTGGTGTAT
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCTGGTGTAT
114166407 TGAATCCAGT
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
41 11 0.14
42 65 0.86
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCTGGTGTATG
Found at i:114166433 original size:41 final size:42
Alignment explanation
Indices: 114166290--114166433 Score: 177
Period size: 42 Copynumber: 3.5 Consensus size: 42
114166280 GATATATCAG
* *
114166290 GCTTATTGCTTAGCAGGCTTTGATGCCGGTGTATGATAT-CA
1 GCTTATTGCCTAGCAGGCTTTGATGCTGGTGTATGATATCCA
* *
114166331 GGCTTATTGCCTAGCAGGCTTTGATGCTAGTGTATGATATCAA
1 -GCTTATTGCCTAGCAGGCTTTGATGCTGGTGTATGATATCCA
*
114166374 GCTTATTGCCTGGCAGGCTTT-ATGCTGGTGTATTGA-ATCCA
1 GCTTATTGCCTAGCAGGCTTTGATGCTGGTGTA-TGATATCCA
* * *
114166415 GTTTATTACCTAGTAGGCT
1 GCTTATTGCCTAGCAGGCT
114166434 CTGTGCCTAT
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
41 29 0.33
42 59 0.66
43 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (42 bp):
GCTTATTGCCTAGCAGGCTTTGATGCTGGTGTATGATATCCA
Found at i:114177432 original size:29 final size:29
Alignment explanation
Indices: 114177400--114177590 Score: 141
Period size: 29 Copynumber: 6.6 Consensus size: 29
114177390 CGTAATCGTC
*
114177400 CCTTTTCCTATTCGATGGTCGAAACCATT
1 CCTTTTCATATTCGATGGTCGAAACCATT
*
114177429 CCTTTTCATATTCGATGGTCGAAACCATC
1 CCTTTTCATATTCGATGGTCGAAACCATT
* * * ** *
114177458 CCATTTCATCAATCGGTGGTCGTCACCATC
1 CCTTTTCAT-ATTCGATGGTCGAAACCATT
* * * * * *
114177488 CCTTTTCAT-TATCTATAGCCGAAGCTATC
1 CCTTTTCATAT-TCGATGGTCGAAACCATT
* * * * *
114177517 CCTTTTCATATTCGATAGCCGAAGCTATC
1 CCTTTTCATATTCGATGGTCGAAACCATT
* ** *
114177546 CCTTTTCATATTCAATGGTCGTCACCATC
1 CCTTTTCATATTCGATGGTCGAAACCATT
*
114177575 CCTTTTCATAATCGAT
1 CCTTTTCATATTCGAT
114177591 AGTCAAAGCT
Statistics
Matches: 132, Mismatches: 27, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
29 107 0.81
30 25 0.19
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.36
Consensus pattern (29 bp):
CCTTTTCATATTCGATGGTCGAAACCATT
Found at i:114177600 original size:87 final size:88
Alignment explanation
Indices: 114177398--114177612 Score: 245
Period size: 87 Copynumber: 2.5 Consensus size: 88
114177388 GTCGTAATCG
* * * * * * *
114177398 TCCCTTTTCCTATTCGATGGTCGAAA-CCATTCCTTTTCATATTCGATGGTCGAAACCATCCCAT
1 TCCCTTTTCATAATCGATAGTC-AAAGCTATCCCTTTTCATATTCGATAGCCGAAACCATCCCAT
**
114177462 TTCATCAATCGGTGGTCGTCACCA
65 TTCATCAATCAATGGTCGTCACCA
* * * * * * *
114177486 TCCCTTTTCATTATCTATAGCCGAAGCTATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTT
1 TCCCTTTTCATAATCGATAGTCAAAGCTATCCCTTTTCATATTCGATAGCCGAAACCATCCCATT
*
114177551 TCAT-ATTCAATGGTCGTCACCA
66 TCATCAATCAATGGTCGTCACCA
*
114177573 TCCCTTTTCATAATCGATAGTCAAAGCTATCCTTTTTCAT
1 TCCCTTTTCATAATCGATAGTCAAAGCTATCCCTTTTCAT
114177613 TAGTCGACGA
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
87 52 0.50
88 52 0.50
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (88 bp):
TCCCTTTTCATAATCGATAGTCAAAGCTATCCCTTTTCATATTCGATAGCCGAAACCATCCCATT
TCATCAATCAATGGTCGTCACCA
Found at i:114177604 original size:29 final size:29
Alignment explanation
Indices: 114177485--114177612 Score: 132
Period size: 29 Copynumber: 4.4 Consensus size: 29
114177475 GGTCGTCACC
* *
114177485 ATCCCTTTTCATTATCTATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
*
114177514 ATCCCTTTTCATATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * * * * *
114177543 ATCCCTTTTCATATTCAATGGTCGTCA-CC
1 ATCCCTTTTCATAATCGATAGCCG-AAGCT
* *
114177572 ATCCCTTTTCATAATCGATAGTCAAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
*
114177601 ATCCTTTTTCAT
1 ATCCCTTTTCAT
114177613 TAGTCGACGA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 1 0.01
29 80 0.98
30 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCGAAGCT
Found at i:114181636 original size:52 final size:52
Alignment explanation
Indices: 114181558--114181711 Score: 236
Period size: 52 Copynumber: 3.0 Consensus size: 52
114181548 TCGAAACTTG
* * *
114181558 CGATCTAGTCTCAACAGAGCATCCATGGGTATGGTCATGAATCCTTATATTA
1 CGATCTAGTCTCGATAGAGCATCCATGGGTATGGTCATGAATTCTTATATTA
* * * *
114181610 CGATCTAGTTTCGATAGAGCGTCCATGGGTATGATCATGAATTCTTATATTG
1 CGATCTAGTCTCGATAGAGCATCCATGGGTATGGTCATGAATTCTTATATTA
*
114181662 CGATCTAGTCTCGATAGAGCATCCATGTGTATGGTCATGAATTCTTATAT
1 CGATCTAGTCTCGATAGAGCATCCATGGGTATGGTCATGAATTCTTATAT
114181712 GTGGTCAGCC
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 91 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (52 bp):
CGATCTAGTCTCGATAGAGCATCCATGGGTATGGTCATGAATTCTTATATTA
Found at i:114183250 original size:17 final size:17
Alignment explanation
Indices: 114183225--114183266 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
114183215 ATATAGATAA
114183225 AAATAAATAACAAAAAT
1 AAATAAATAACAAAAAT
* *
114183242 AAATGAATAAGAAAAAT
1 AAATAAATAACAAAAAT
*
114183259 AAACAAAT
1 AAATAAAT
114183267 GACTTAAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (17 bp):
AAATAAATAACAAAAAT
Found at i:114184123 original size:19 final size:18
Alignment explanation
Indices: 114184070--114184136 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 18
114184060 AACTAAACAC
114184070 AAATAAAATTCATAAAAAAT
1 AAATAAAATT--TAAAAAAT
*
114184090 AAA-AAAATGAATAAAAAAT
1 AAATAAAAT--TTAAAAAAT
*
114184109 AAAATAAAATTTAAAACAAG
1 -AAATAAAATTTAAAA-AAT
114184129 AAATAAAA
1 AAATAAAA
114184137 GTTTTTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
19 26 0.67
20 8 0.21
21 5 0.13
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATAAAATTTAAAAAAT
Found at i:114197139 original size:39 final size:40
Alignment explanation
Indices: 114197081--114197181 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
114197071 AAATTGAATG
* *
114197081 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTA-AAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
114197120 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
114197160 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
114197182 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 30 0.57
40 23 0.43
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:114197174 original size:40 final size:40
Alignment explanation
Indices: 114197081--114197258 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
114197071 AAATTGAATG
* * * * *
114197081 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTA-AAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
114197120 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
114197160 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
114197200 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
114197240 ATATCCGGGTTAAGTCCCG
1 ATATCCGGGCTAAGACCCG
114197259 TAGCCTTGGT
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 33 0.28
40 82 0.70
41 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:114204960 original size:79 final size:81
Alignment explanation
Indices: 114204851--114205033 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
114204841 TACTCGTTCA
* *
114204851 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
114204914 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
114204931 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
114204994 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
114205010 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
114205034 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:114205033 original size:40 final size:40
Alignment explanation
Indices: 114204830--114205033 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
114204820 CGGAATTTAA
** *
114204830 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
114204870 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
114204910 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
114204949 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
114204989 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
114205029 CCGGA
1 CCGGA
114205034 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:114213672 original size:40 final size:40
Alignment explanation
Indices: 114213592--114213771 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
114213582 ACCCAAGTTT
* * * *
114213592 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
114213631 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
114213671 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
114213711 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
114213751 CTTCGGG-CTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
114213772 CATTCAAATG
Statistics
Matches: 129, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 24 0.19
40 104 0.81
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:114216093 original size:40 final size:40
Alignment explanation
Indices: 114216049--114216232 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
114216039 GCTACTCATT
*
114216049 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
114216089 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
114216129 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* ** * *
114216168 CAAATGCCTTC-GGATCTTAGTCCGAATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
114216209 CAAA-GCCTTCGGGACTTACCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
114216233 ACATCATTCG
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 75 0.61
41 14 0.11
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:114216217 original size:79 final size:81
Alignment explanation
Indices: 114216049--114216233 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
114216039 GCTACTCATT
* *
114216049 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * *
114216113 GATTTAGTAACTCGCAC
65 AATATAGTAACTAGCAC
* **
114216130 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
114216192 AATATAGTCACTTAGCA-
65 AATATAGTAAC-TAGCAC
*
114216209 CAAAGCCTTCGGGACTTACCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
114216234 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
ATATAGTAACTAGCAC
Found at i:114217469 original size:15 final size:14
Alignment explanation
Indices: 114217446--114217485 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
114217436 ACATGAGAGC
*
114217446 TTTTCTCTTCTTTTT
1 TTTTTTCTT-TTTTT
114217461 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
114217475 TCTTTTTCTTT
1 T-TTTTTCTTT
114217486 CTTCTATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:114217473 original size:9 final size:9
Alignment explanation
Indices: 114217446--114217488 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
114217436 ACATGAGAGC
*
114217446 TTTTCTCTT
1 TTTTCTTTT
*
114217455 CTTT-TTTT
1 TTTTCTTTT
114217463 TTTTCTTTT
1 TTTTCTTTT
114217472 TTTTCTTTT
1 TTTTCTTTT
114217481 TCTTTCTT
1 T-TTTCTT
114217489 CTATTCATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 6 0.21
9 17 0.59
10 6 0.21
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:114218778 original size:22 final size:22
Alignment explanation
Indices: 114218743--114218784 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
114218733 TAAGTTAGTA
* *
114218743 ATGTTTTAGTTATGGAAATGGT
1 ATGTTTTAGGTATGAAAATGGT
*
114218765 ATGTTTTTGGTATGAAAATG
1 ATGTTTTAGGTATGAAAATG
114218785 AATGTGAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (22 bp):
ATGTTTTAGGTATGAAAATGGT
Found at i:114220727 original size:29 final size:29
Alignment explanation
Indices: 114220694--114220825 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
114220684 GTGACGAGAT
114220694 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
114220723 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * ***
114220752 TGGCAATAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
114220781 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
114220810 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
114220826 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:114223832 original size:39 final size:39
Alignment explanation
Indices: 114223750--114223901 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
114223740 TATGGTAACC
* * * * *
114223750 CGCACAAATGCCTTCGGGACTTAACTCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
114223790 CGCACAATTGCCTTCGGGCTTAGCCCAGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
114223829 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
114223868 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
114223902 CTCGAACATT
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 86 0.83
40 17 0.17
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:114239043 original size:57 final size:58
Alignment explanation
Indices: 114238915--114239051 Score: 195
Period size: 57 Copynumber: 2.4 Consensus size: 58
114238905 GCTGACGAAG
* * **
114238915 TTTAGCCTAGACTGGTAATCCTAATATAATCTCTCCTGAGCATATGTTACAATTAGGA
1 TTTAGCCTAGACTGGTAATCCTAATATAAGCTCTCCTGAGCATATATTACAAAAAGGA
* * * *
114238973 TTTAGCCTGGACTGGTAATCCTAAT-TGAGCTCTTCTGAGCATATATTTCAAAAAGGA
1 TTTAGCCTAGACTGGTAATCCTAATATAAGCTCTCCTGAGCATATATTACAAAAAGGA
114239030 TTTAGCCTAGACTGGTAATCCT
1 TTTAGCCTAGACTGGTAATCCT
114239052 GTTATATGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
57 46 0.66
58 24 0.34
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (58 bp):
TTTAGCCTAGACTGGTAATCCTAATATAAGCTCTCCTGAGCATATATTACAAAAAGGA
Found at i:114241054 original size:47 final size:43
Alignment explanation
Indices: 114240945--114241074 Score: 129
Period size: 47 Copynumber: 2.9 Consensus size: 43
114240935 TGTGTGCCAG
* * *
114240945 TGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGG---CATTACGAGAGACAC
* *
114240991 TGTAAGACCATTTCTGGGACATGGCATCGGCATTGAGACGAGAGATAC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCATT---ACGAGAGACAC
114241039 TGTAAGACATGTCTGGGACATGCATCGGC--TACGAGA
1 TGTAAGACATGTCTGGGACATGCATCGGCATTACGAGA
114241075 TGTGTCAGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
41 6 0.08
44 1 0.01
45 4 0.05
46 15 0.21
47 26 0.36
48 21 0.29
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (43 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATTACGAGAGACAC
Found at i:114241124 original size:46 final size:44
Alignment explanation
Indices: 114240937--114241117 Score: 116
Period size: 46 Copynumber: 4.0 Consensus size: 44
114240927 AGGTTATTTG
* * * *
114240937 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTA
1 TGTGTCAGTGTAAGACATCTCTGGGACATGCATCGGCAACGA-GA
* * * **
114240981 TGAGAGCCAGTGTAAGACCATTTCTGGGACATGGCATCGGCATTGAGA
1 T--GTGTCAGTGTAAGA-CATCTCTGGGACAT-GCATCGGCAACGAGA
* * * * *
114241029 CGAGAGAT-ACTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
1 --TGTG-TCAGTGTAAGACATCTCTGGGACATGCATCGGCAACGAGA
*
114241075 TGTGTCAGTGTAAGACCATCTTTGGGACATGGCATCGG-AACGA
1 TGTGTCAGTGTAAGA-CATCTCTGGGACAT-GCATCGGCAACGA
114241118 ATATGTGAGA
Statistics
Matches: 107, Mismatches: 19, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
43 1 0.01
44 11 0.10
45 16 0.15
46 32 0.30
47 26 0.24
48 20 0.19
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (44 bp):
TGTGTCAGTGTAAGACATCTCTGGGACATGCATCGGCAACGAGA
Found at i:114241140 original size:94 final size:93
Alignment explanation
Indices: 114240943--114241112 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 93
114240933 TTTGTGTGCC
*
114240943 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATTTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGAT-AGAGCCAGTGTAAGACCATTTCTGG
*
114241008 GACATGGCATCGGCATTGAGACGAGAGAT
65 GACATGGCATCGGCAATGAGACGAGAGAT
* * * *
114241037 ACTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT-GTGTCAGTGTAAGACCATCTT-TG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATAGAGCCAGTGTAAGACCAT-TTCTG
114241099 GGACATGGCATCGG
64 GGACATGGCATCGG
114241113 AACGAATATG
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
92 32 0.46
93 2 0.03
94 34 0.49
95 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATAGAGCCAGTGTAAGACCATTTCTGGG
ACATGGCATCGGCAATGAGACGAGAGAT
Found at i:114241193 original size:49 final size:47
Alignment explanation
Indices: 114241131--114241256 Score: 139
Period size: 47 Copynumber: 2.6 Consensus size: 47
114241121 TGTGAGAGTT
* * ** *
114241131 AGTGCAAGACCATGTCTTGGACATGGTGTCAGCCTCGATTTTGG-T-AGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCAG-CTCGA---TGGATGAGCC
* *
114241180 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCTCGATGGATGAGCC
114241227 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGACCATGTCTAGGACATGGCATC
114241257 GGCATTATAC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 3 0.04
46 1 0.01
47 32 0.47
48 4 0.06
49 28 0.41
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGCTCGATGGATGAGCC
Found at i:114243654 original size:13 final size:13
Alignment explanation
Indices: 114243636--114243663 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
114243626 AGGTTAAACA
114243636 AAGGTAAGAATTT
1 AAGGTAAGAATTT
114243649 AAGGTAAGAATTT
1 AAGGTAAGAATTT
114243662 AA
1 AA
114243664 ACATGTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (13 bp):
AAGGTAAGAATTT
Found at i:114250742 original size:43 final size:43
Alignment explanation
Indices: 114250622--114250766 Score: 131
Period size: 43 Copynumber: 3.4 Consensus size: 43
114250612 AGCTTGTACA
* * *
114250622 ATGCCAATG-CCCTAGACATGGCCTTACATGT-AATTAAATATCG
1 ATGCCAATGTCCC-AGACATGGCTTTACACGTAAATCAAATAT-G
* *
114250665 ATGCCACTGTCCCAGACA-GAG-TCTTACAC-AAAATCAAATATG
1 ATGCCAATGTCCCAGACATG-GCT-TTACACGTAAATCAAATATG
* *
114250707 ATGCCGATGTCCCAGACATGGCTTTACACGTAAATCATAAGT-CG
1 ATGCCAATGTCCCAGACATGGCTTTACACGTAAATCA-AA-TATG
114250751 ATGCCAATGTCCCAGA
1 ATGCCAATGTCCCAGA
114250767 TGTAGTCTTA
Statistics
Matches: 83, Mismatches: 10, Indels: 17
0.75 0.09 0.15
Matches are distributed among these distances:
42 25 0.30
43 36 0.43
44 21 0.25
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGCTTTACACGTAAATCAAATATG
Found at i:114250778 original size:44 final size:41
Alignment explanation
Indices: 114250661--114250781 Score: 104
Period size: 44 Copynumber: 2.9 Consensus size: 41
114250651 GTAATTAAAT
*
114250661 ATCGATGCCACTGTCCCAGACAG-AGTCTTACACAAAATCAA
1 ATCGATGCCAATGTCCCAGA-AGTAGTCTTACACAAAATCAA
* * * *
114250702 ATATGATGCCGATGTCCCAGACA-T-GGCTTTACACGTAAATCATA
1 AT-CGATGCCAATGTCCCAGA-AGTAGTC-TTACAC-AAAATCA-A
*
114250746 AGTCGATGCCAATGTCCCAGATGTAGTCTTACACAA
1 A-TCGATGCCAATGTCCCAGAAGTAGTCTTACACAA
114250782 TAACACATAT
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
41 4 0.06
42 23 0.37
43 7 0.11
44 25 0.40
45 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (41 bp):
ATCGATGCCAATGTCCCAGAAGTAGTCTTACACAAAATCAA
Found at i:114256657 original size:93 final size:93
Alignment explanation
Indices: 114256545--114256717 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
114256535 CGCCCATAAG
* *
114256545 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
114256610 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
114256638 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
114256703 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
114256718 CAAATATCCC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:114256713 original size:46 final size:46
Alignment explanation
Indices: 114256538--114256713 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
114256528 TGTAACCCGC
* *
114256538 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
114256584 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
114256634 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
114256677 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
114256714 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:114259004 original size:40 final size:40
Alignment explanation
Indices: 114258752--114258997 Score: 368
Period size: 40 Copynumber: 6.2 Consensus size: 40
114258742 AACCCAAGTA
* *
114258752 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
114258791 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
114258831 CCTTCGGGACTTAGCCCAGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
114258871 CCTTCAGGACTTAGCCCAGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
114258911 CCTTCGAGACTTAGCCCGGATATAGTCACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
114258951 CCTTCGAGACTTAGCCTGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
114258991 CCTTCGG
1 CCTTCGG
114258998 ATCTTAGTCC
Statistics
Matches: 191, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
39 13 0.07
40 178 0.93
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:114261852 original size:62 final size:62
Alignment explanation
Indices: 114261755--114261878 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
114261745 GGAACAAATG
* *
114261755 ACCAAAAAGTTTTTATTAAAATATTTTCCGCCGGCTAAAACAGCTAAATTACGTAATCATAT
1 ACCAAAAAGTTTTTATGAAAATATTTTCCGCCGGCTAAAACAGATAAATTACGTAATCATAT
*
114261817 ACCAAAAAGTTTTTATGAAAATATTTTCCGCCGGCTAAAATAGATAAATTACGTAATCATAT
1 ACCAAAAAGTTTTTATGAAAATATTTTCCGCCGGCTAAAACAGATAAATTACGTAATCATAT
114261879 CTCCTCTTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.32
Consensus pattern (62 bp):
ACCAAAAAGTTTTTATGAAAATATTTTCCGCCGGCTAAAACAGATAAATTACGTAATCATAT
Found at i:114282372 original size:2 final size:2
Alignment explanation
Indices: 114282365--114282393 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
114282355 ATGTGCAAAA
114282365 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114282394 CATGTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114282541 original size:32 final size:32
Alignment explanation
Indices: 114282481--114282541 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
114282471 ACACAATATG
* * *
114282481 GTATTTAAAATATAATATATATGTATATAATA
1 GTATTTAAAATATAATACATAAGAATATAATA
114282513 GTATTTAAGAATAT-ATACATAAGAATATA
1 GTATTTAA-AATATAATACATAAGAATATA
114282542 TAACTAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 20 0.80
33 5 0.20
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (32 bp):
GTATTTAAAATATAATACATAAGAATATAATA
Found at i:114283180 original size:1 final size:1
Alignment explanation
Indices: 114283130--114283163 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
114283120 TTGGGGTAAG
* *
114283130 TTTTTCTTTTTCTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
114283164 GGGTTAGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:114284121 original size:72 final size:71
Alignment explanation
Indices: 114284028--114284357 Score: 290
Period size: 80 Copynumber: 4.5 Consensus size: 71
114284018 AATTAAAAGA
* * *
114284028 CTCAACTCACCTCTCGTAATATGAATTGACTCTTTAAGA-T-A-GAATTTGAAAATACCTTAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-T-TTT-AGATTAAGGAA-TTGAAAATACCTCAGCG
*
114284090 TGCCGCAAGG
62 TGCCCCAAGG
* *
114284100 CTCAACTCACCTCTCGCAATATGAGTCGATTTTAGATTTAATGGGAATTGAAATTACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGA-TTAA--GGAATTGAAAATACCTCAGCGT
114284165 GCCCCAAGG
63 GCCCCAAGG
* * *
114284174 TTCAACTCACTTCTCGCAATATGAGTTGATAATGAGTTTAGATTTAATGGGAATTGAAATTACCT
1 CTCAACTCACCTCTCGCAATATGAGTTG---AT---TTTAGA-TTAA--GGAATTGAAAATACCT
114284239 CAGCGTGCCCCAAGG
57 CAGCGTGCCCCAAGG
* * * * * * * * *
114284254 TTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA-AACATGAATTGAAATTACCCCAACGTGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTA-AGGAATTGAAAATACCTCAGCGTGC
***
114284318 CTTGAGG
65 CCCAAGG
114284325 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
114284358 CTTGGAAACA
Statistics
Matches: 225, Mismatches: 20, Indels: 27
0.83 0.07 0.10
Matches are distributed among these distances:
69 3 0.01
70 3 0.01
71 57 0.25
72 28 0.12
73 1 0.00
74 54 0.24
75 3 0.01
77 4 0.02
80 72 0.32
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (71 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTAAGGAATTGAAAATACCTCAGCGTGCC
CCAAGG
Found at i:114284173 original size:74 final size:74
Alignment explanation
Indices: 114284073--114284357 Score: 335
Period size: 80 Copynumber: 3.8 Consensus size: 74
114284063 AAGATAGAAT
* * * *
114284073 TTGAAAATACCTTAGCGTGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGATT
1 TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
114284138 TAATGGGAA
66 TAATGGGAA
* *
114284147 TTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATAATGAGTT
1 TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTG---AT---TT
114284212 TAGATTTAATGGGAA
60 TAGATTTAATGGGAA
* * *
114284227 TTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA--
1 TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
*
114284290 AACAT--GAA
66 TA-ATGGGAA
* * * ***
114284298 TTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
114284358 CTTGGAAACA
Statistics
Matches: 188, Mismatches: 16, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
71 55 0.29
72 1 0.01
73 2 0.01
74 54 0.29
77 4 0.02
80 72 0.38
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (74 bp):
TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
TAATGGGAA
Found at i:114284260 original size:154 final size:151
Alignment explanation
Indices: 114284073--114284669 Score: 444
Period size: 159 Copynumber: 3.8 Consensus size: 151
114284063 AAGATAGAAT
* *
114284073 TTGAAAATACCTTAGCGTGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGATT
1 TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGA--
* * * * *
114284138 TA-ATGGGAATTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTG
64 AACAT--GAATTGAAATTACCCCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
114284202 ATAATGAGTTTAGATTTAATGGGAA
127 ATAATGAGTTTAGATTTAATGGGAA
* * * * *
114284227 TTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGAAA
* ***
114284292 CATGAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
66 CATGAATTGAAATTACCCCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---
** *** ** * *
114284357 TCTTG-GAAACATGAACTAAAAAGCAGAAA
128 TAATGAG-TTTA-G-A-TTTAATG--GGAA
** * * *
114284386 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGAAA
* * * *** *
114284451 CATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
66 CATGAATTGAAATTACCCCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---
** **** * * *
114284516 TCTTGGAAAACATGAATTAAAAAGTAGAAA
128 TAAT-GAGTTTA-G-ATT--TAA-TGGGAA
** * * **
114284546 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTATTT
1 TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGA-TTTTA-GA
* * * * *
114284611 AATAGGAATTGAAATTACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAG
64 AACATGAATTGAAATTACCCCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAG
114284670 CTGCTTTTTG
Statistics
Matches: 381, Mismatches: 45, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
151 51 0.13
152 1 0.00
153 3 0.01
154 60 0.16
155 1 0.00
156 1 0.00
157 4 0.01
159 131 0.34
160 69 0.18
161 37 0.10
162 23 0.06
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (151 bp):
TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGAAA
CATGAATTGAAATTACCCCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATAA
TGAGTTTAGATTTAATGGGAA
Found at i:114284432 original size:159 final size:160
Alignment explanation
Indices: 114284225--114284677 Score: 723
Period size: 159 Copynumber: 2.8 Consensus size: 160
114284215 ATTTAATGGG
* ** *
114284225 AATTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* *
114284290 AACATGAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACATGAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
114284355 TTTCTTGG-AAACATGAACTAAAAAGCAGA
131 TTTCTTGGAAAACATGAACTAAAAAGCAGA
114284384 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
114284449 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATGAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
114284514 TTTCTTGGAAAACATGAATTAAAAAGTAGA
131 TTTCTTGGAAAACATGAACTAAAAAGCAGA
114284544 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-A
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* * * **
114284608 TTTAATAGGAATTGAAATTACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGCT
66 ---AACATGAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCT
*
114284672 GCTTTT
128 GATTTT
114284678 TGAAACATAA
Statistics
Matches: 274, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
159 132 0.48
160 82 0.30
161 37 0.14
162 23 0.08
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATGAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAACTAAAAAGCAGA
Found at i:114284499 original size:71 final size:71
Alignment explanation
Indices: 114284383--114284748 Score: 279
Period size: 71 Copynumber: 4.9 Consensus size: 71
114284373 TAAAAAGCAG
* * *
114284383 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
114284448 AAACAT
66 AAACAT
* * *
114284454 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTT-T
114284519 TGGAAAACAT
64 T-G-AAACAT
* * ** * ** * * * * *
114284529 GAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATA
1 AAATTGAAAA-T---ACCTCAACGTGCC-CTGAG-G--CTCA-ACTC-A--C-C-TCTCGCAATA
* *
114284594 TGAGTTGATTTTT-ATTTA-AT
52 TGAGCTGATTTTTGA--AACAT
* * *
114284614 AGGAATTGAAATTACCTCAGCGTGCCC-GAGGCTCAACTCACCTCTCGCAATATGAGCTGCTTTT
1 A--AATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
114284678 TGAAACAT
64 TGAAACAT
* * *
114284686 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
114284749 CTTGGAAAAC
Statistics
Matches: 227, Mismatches: 43, Indels: 50
0.71 0.13 0.16
Matches are distributed among these distances:
70 21 0.09
71 90 0.40
72 27 0.12
73 4 0.02
74 2 0.01
75 13 0.06
76 2 0.01
77 3 0.01
78 3 0.01
79 6 0.03
80 3 0.01
81 3 0.01
82 1 0.00
83 9 0.04
84 4 0.02
85 3 0.01
86 2 0.01
87 10 0.04
88 4 0.02
89 17 0.07
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:114284691 original size:232 final size:233
Alignment explanation
Indices: 114284384--114284838 Score: 849
Period size: 232 Copynumber: 2.0 Consensus size: 233
114284374 AAAAAGCAGA
* *
114284384 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA
114284449 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
114284514 TTTCTTGGAAAACATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
131 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
114284579 TCACTTCTCGCAATATGAGTTGATTTTTATTTAATAGG
196 TCACTTCTCGCAATATGAGTTGATTTTTATTTAATAGG
* *
114284617 AATTGAAATTACCTCAGCGTGCCC-GAGGCTCAACTCACCTCTCGCAATATGAGCTGCTTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA
114284681 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
114284746 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGGAAATACCTCAGCGTGCCCTGAGGCTCAAC
131 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
114284811 TCACTTCTCGCAATATGAGTTGATTTTT
196 TCACTTCTCGCAATATGAGTTGATTTTT
114284839 GGAAAAAACA
Statistics
Matches: 216, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
232 193 0.89
233 23 0.11
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (233 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
TCACTTCTCGCAATATGAGTTGATTTTTATTTAATAGG
Found at i:114293208 original size:12 final size:12
Alignment explanation
Indices: 114293186--114293221 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
114293176 TGGGATATGC
*
114293186 AATGAATGAATG
1 AATGCATGAATG
*
114293198 GATGCATGAATG
1 AATGCATGAATG
114293210 AATGCATGAATG
1 AATGCATGAATG
114293222 TCAGTCATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:114293208 original size:16 final size:17
Alignment explanation
Indices: 114293182--114293213 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
114293172 AGTATGGGAT
114293182 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
114293199 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
114293214 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:114295414 original size:16 final size:16
Alignment explanation
Indices: 114295395--114295429 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
114295385 TTGGGGTAAG
114295395 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
114295411 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
114295427 TTT
1 TTT
114295430 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:114298300 original size:40 final size:40
Alignment explanation
Indices: 114298255--114298421 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
114298245 CGGAATACAA
114298255 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
114298295 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
114298335 CCGGATGTAGCCACTAGCAC-AATTGCCTTC-GGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
114298374 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
114298414 CCGGATAT
1 CCGGATAT
114298422 CATTCAATTG
Statistics
Matches: 103, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
39 30 0.29
40 73 0.71
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:114303611 original size:40 final size:40
Alignment explanation
Indices: 114303566--114303695 Score: 133
Period size: 40 Copynumber: 3.2 Consensus size: 40
114303556 CGGAATACAA
114303566 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * * *
114303606 CCGGATAGAATG-ACT-CGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
114303646 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
114303686 CCGGATATAA
1 CCGGATATAA
114303696 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 67 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:114303710 original size:40 final size:40
Alignment explanation
Indices: 114303582--114303733 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
114303572 ATAAGCATGT
* * *
114303582 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
* ** * *
114303622 GCACGAA-TGCCTTTGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
114303662 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
114303702 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
114303734 CATTCAATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 87 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:114303724 original size:80 final size:80
Alignment explanation
Indices: 114303582--114303733 Score: 191
Period size: 80 Copynumber: 1.9 Consensus size: 80
114303572 ATAAGCATGT
* * *
114303582 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTTGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
114303647 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
114303662 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
114303725 CCCGGATAT
64 CCCGGATAT
114303734 CATTCAATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:114305905 original size:21 final size:20
Alignment explanation
Indices: 114305866--114305906 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
114305856 CCATGGAATG
*
114305866 AGCAAACGAGCTCATTGAGC
1 AGCAAACGAGCTAATTGAGC
114305886 AGCAAACGAGCTGAATTGAGC
1 AGCAAACGAGCT-AATTGAGC
114305907 TCAACAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.15
Consensus pattern (20 bp):
AGCAAACGAGCTAATTGAGC
Found at i:114309690 original size:14 final size:13
Alignment explanation
Indices: 114309673--114309743 Score: 76
Period size: 13 Copynumber: 5.5 Consensus size: 13
114309663 GAAAATTGAT
114309673 AAAAGAAAATGAGA
1 AAAAGAAAA-GAGA
* *
114309687 AAAATACAAGA-A
1 AAAAGAAAAGAGA
114309699 AAAAG-AAAGAAGA
1 AAAAGAAAAG-AGA
114309712 AAAAGAAAAGAGA
1 AAAAGAAAAGAGA
114309725 AAGAAGAAAA-AGA
1 AA-AAGAAAAGAGA
114309738 AAAAGA
1 AAAAGA
114309744 TTGTGAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
11 3 0.06
12 10 0.20
13 18 0.37
14 18 0.37
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (13 bp):
AAAAGAAAAGAGA
Found at i:114309706 original size:7 final size:7
Alignment explanation
Indices: 114309694--114309741 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
114309684 AGAAAAATAC
114309694 AAGAAAA
1 AAGAAAA
*
114309701 AAGAAAG
1 AAGAAAA
114309708 AAG-AAA
1 AAGAAAA
114309714 AAGAAAA
1 AAGAAAA
* *
114309721 GAGAAAG
1 AAGAAAA
114309728 AAG-AAA
1 AAGAAAA
114309734 AAGAAAA
1 AAGAAAA
114309741 A
1 A
114309742 GATTGTGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 10 0.30
7 23 0.70
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:114309717 original size:20 final size:20
Alignment explanation
Indices: 114309694--114309741 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
114309684 AGAAAAATAC
114309694 AAGAAAAAAGAAAGAAGAAA
1 AAGAAAAAAGAAAGAAGAAA
*
114309714 AAGAAAAGAGAAAGAAGAAA
1 AAGAAAAAAGAAAGAAGAAA
114309734 AAGAAAAA
1 AAGAAAAA
114309742 GATTGTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AAGAAAAAAGAAAGAAGAAA
Found at i:114309719 original size:6 final size:6
Alignment explanation
Indices: 114309698--114309743 Score: 65
Period size: 6 Copynumber: 7.2 Consensus size: 6
114309688 AAATACAAGA
114309698 AAAAAG AAAGAAG AAAAAG AAAAGAG AAAGAAG AAAAAG AAAAAG A
1 AAAAAG AAA-AAG AAAAAG AAAA-AG AAA-AAG AAAAAG AAAAAG A
114309744 TTGTGAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 20 0.54
7 16 0.43
8 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:114315422 original size:46 final size:46
Alignment explanation
Indices: 114315355--114315480 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
114315345 AACCCACCCC
* * *
114315355 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
114315401 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
114315447 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
114315481 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:114315499 original size:46 final size:45
Alignment explanation
Indices: 114315357--114315499 Score: 146
Period size: 46 Copynumber: 3.1 Consensus size: 45
114315347 CCCACCCCTA
* ** * *
114315357 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*** *
114315402 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
114315448 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
114315495 AGTGA
1 AGTGA
114315500 CATGTCACTT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 82 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:114315937 original size:30 final size:30
Alignment explanation
Indices: 114315903--114315962 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
114315893 ATTTAATAGG
114315903 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
114315933 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
114315963 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:114317381 original size:25 final size:25
Alignment explanation
Indices: 114317346--114317550 Score: 254
Period size: 25 Copynumber: 8.2 Consensus size: 25
114317336 TAAGCTTGTT
*
114317346 AATTTGTTCTTAATAATTTTGGTTA
1 AATTTGCTCTTAATAATTTTGGTTA
* * *
114317371 AATTTGCTCTTTATAGTTCTGGTTA
1 AATTTGCTCTTAATAATTTTGGTTA
* *
114317396 AATTTGTTCTTAATAATTATGGTTA
1 AATTTGCTCTTAATAATTTTGGTTA
**
114317421 AATTTGCTCTTAAT-ATTTCCAGTTA
1 AATTTGCTCTTAATAATTT-TGGTTA
*
114317446 AATTTGCTCTTAATAATTCTGGTTA
1 AATTTGCTCTTAATAATTTTGGTTA
* **
114317471 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTTTGGTTA
114317496 AATTTGCTCTTAAT-ATTTTCGGTTA
1 AATTTGCTCTTAATAATTTT-GGTTA
114317521 AATTTGCTCTTAAT-ATTTTCGGTTA
1 AATTTGCTCTTAATAATTTT-GGTTA
114317546 AATTT
1 AATTT
114317551 TCCCTTATTA
Statistics
Matches: 157, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
24 6 0.04
25 148 0.94
26 3 0.02
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (25 bp):
AATTTGCTCTTAATAATTTTGGTTA
Found at i:114317434 original size:75 final size:73
Alignment explanation
Indices: 114317346--114317550 Score: 293
Period size: 75 Copynumber: 2.7 Consensus size: 73
114317336 TAAGCTTGTT
* *
114317346 AATTTGTTCTTAATAATTTTGGTTAAATTTGCTCTTTATAGTTCTGGTTAAATTTGTTCTTAATA
1 AATTTGCTCTTAAT-ATTTTGGTTAAATTTGCTCTTAATA-TTCTGGTTAAATTTGTTCTTAATA
*
114317411 ATTATGGTTA
64 ATTACGGTTA
**
114317421 AATTTGCTCTTAATATTTCCAGTTAAATTTGCTCTTAATAATTCTGGTTAAATTTGTTCTTAATA
1 AATTTGCTCTTAATATTT-TGGTTAAATTTGCTCTTAAT-ATTCTGGTTAAATTTGTTCTTAATA
*
114317486 ATTCCGGTTA
64 ATTACGGTTA
*
114317496 AATTTGCTCTTAATATTTTCGGTTAAATTTGCTCTTAATATTTTCGGTTAAATTT
1 AATTTGCTCTTAATATTTT-GGTTAAATTTGCTCTTAATATTCT-GGTTAAATTT
114317551 TCCCTTATTA
Statistics
Matches: 117, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
74 8 0.07
75 108 0.92
76 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (73 bp):
AATTTGCTCTTAATATTTTGGTTAAATTTGCTCTTAATATTCTGGTTAAATTTGTTCTTAATAAT
TACGGTTA
Found at i:114317550 original size:12 final size:12
Alignment explanation
Indices: 114317490--114317552 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
114317480 TTAATAATTC
*
114317490 CGGTTAAATTTG
1 CGGTTAAATTTT
**
114317502 CTCTTAATATTTT
1 CGGTTAA-ATTTT
*
114317515 CGGTTAAATTTG
1 CGGTTAAATTTT
**
114317527 CTCTTAATATTTT
1 CGGTTAA-ATTTT
114317540 CGGTTAAATTTT
1 CGGTTAAATTTT
114317552 C
1 C
114317553 CCTTATTATT
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
12 20 0.53
13 18 0.47
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.51
Consensus pattern (12 bp):
CGGTTAAATTTT
Found at i:114318486 original size:29 final size:29
Alignment explanation
Indices: 114318452--114318537 Score: 145
Period size: 29 Copynumber: 3.0 Consensus size: 29
114318442 ATAATATTCA
114318452 GGCCTTTGAGCCTAGCAGGCTATAATGCG
1 GGCCTTTGAGCCTAGCAGGCTATAATGCG
*
114318481 GGCCTTTGAGCCTAGCAGGCTATAATGTG
1 GGCCTTTGAGCCTAGCAGGCTATAATGCG
* *
114318510 GCCCTTTGAGCTTAGCAGGCTATAATGC
1 GGCCTTTGAGCCTAGCAGGCTATAATGC
114318538 CAATGATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (29 bp):
GGCCTTTGAGCCTAGCAGGCTATAATGCG
Found at i:114318588 original size:103 final size:103
Alignment explanation
Indices: 114318409--114318685 Score: 484
Period size: 103 Copynumber: 2.7 Consensus size: 103
114318399 ACTATTCGGG
*
114318409 CCTTTGAGCCTAGCAGGCTATAATGCCGGTGATATAATATTCAGGCCTTTGAGCCTAGCAGGCTA
1 CCTTTGAGCTTAGCAGGCTATAATGCCGGTGATATAATATTCAGGCCTTTGAGCCTAGCAGGCTA
114318474 TAATGCGGGCCTTTGAGCCTAGCAGGCTATAATGTGGC
66 TAATGCGGGCCTTTGAGCCTAGCAGGCTATAATGTGGC
**
114318512 CCTTTGAGCTTAGCAGGCTATAATGCCAATGATATAATATTCAGGCCTTTGAGCCTAGCAGGCTA
1 CCTTTGAGCTTAGCAGGCTATAATGCCGGTGATATAATATTCAGGCCTTTGAGCCTAGCAGGCTA
*
114318577 TAATGCGGGCCTTTGAGCCTAGCAGGCTATAATGTGGG
66 TAATGCGGGCCTTTGAGCCTAGCAGGCTATAATGTGGC
* *
114318615 CCTTTGAGCTTAGCAGGCTATAATGCCGGTGAGATACTATTC-GGACCTTTGAGCCTAGCAGGCT
1 CCTTTGAGCTTAGCAGGCTATAATGCCGGTGATATAATATTCAGG-CCTTTGAGCCTAGCAGGCT
114318679 ATAATGC
65 ATAATGC
114318686 CGGTGAGATA
Statistics
Matches: 165, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
102 2 0.01
103 163 0.99
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (103 bp):
CCTTTGAGCTTAGCAGGCTATAATGCCGGTGATATAATATTCAGGCCTTTGAGCCTAGCAGGCTA
TAATGCGGGCCTTTGAGCCTAGCAGGCTATAATGTGGC
Found at i:114318589 original size:29 final size:29
Alignment explanation
Indices: 114318555--114318640 Score: 154
Period size: 29 Copynumber: 3.0 Consensus size: 29
114318545 ATAATATTCA
114318555 GGCCTTTGAGCCTAGCAGGCTATAATGCG
1 GGCCTTTGAGCCTAGCAGGCTATAATGCG
*
114318584 GGCCTTTGAGCCTAGCAGGCTATAATGTG
1 GGCCTTTGAGCCTAGCAGGCTATAATGCG
*
114318613 GGCCTTTGAGCTTAGCAGGCTATAATGC
1 GGCCTTTGAGCCTAGCAGGCTATAATGC
114318641 CGGTGAGATA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (29 bp):
GGCCTTTGAGCCTAGCAGGCTATAATGCG
Found at i:114318679 original size:45 final size:45
Alignment explanation
Indices: 114318615--114318730 Score: 205
Period size: 45 Copynumber: 2.6 Consensus size: 45
114318605 ATAATGTGGG
*
114318615 CCTTTGAGCTTAGCAGGCTATAATGCCGGTGAGATACTATTCGGA
1 CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGA
*
114318660 CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG
1 CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGA
*
114318705 CCTTCGAGCCTAGCAGGCTATAATGC
1 CCTTTGAGCCTAGCAGGCTATAATGC
114318731 TGATGAAATG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (45 bp):
CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGA
Found at i:114323171 original size:16 final size:17
Alignment explanation
Indices: 114323139--114323171 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
114323129 CATCAAGAAG
114323139 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
114323157 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
114323172 CTTCAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:114326343 original size:39 final size:40
Alignment explanation
Indices: 114326242--114326425 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
114326232 TCGAATGATG
* *
114326242 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
114326282 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
114326322 TCTGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
114326360 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
114326401 -CCGGCCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
114326426 AATGAGTAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 25 0.20
39 19 0.15
40 72 0.57
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:114326377 original size:78 final size:80
Alignment explanation
Indices: 114326245--114326423 Score: 231
Period size: 78 Copynumber: 2.3 Consensus size: 80
114326235 AATGATGTCC
*
114326245 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
114326310 CGAGTTACTAATTCT
66 CGAGTTACTAATTCT
* * **
114326325 GGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTGT
* *
114326387 GCGAGTTACT-ATAACC
65 GCGAGTTACTAAT-TCT
* *
114326403 GGCCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
114326424 TGAATGAGTA
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
77 3 0.03
78 49 0.56
79 27 0.31
80 8 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGTTACTAATTCT
Found at i:114327930 original size:17 final size:19
Alignment explanation
Indices: 114327888--114327931 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
114327878 ATGAAATTTT
*
114327888 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
114327907 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
114327925 AA-TATTA
1 AATTATTA
114327932 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:114328063 original size:2 final size:2
Alignment explanation
Indices: 114328056--114328090 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
114328046 TAGATAGGAA
* *
114328056 AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114328091 AAAGTATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:114330358 original size:10 final size:10
Alignment explanation
Indices: 114330345--114330393 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
114330335 AAACGAGCTC
114330345 GTTGAGCTAA
1 GTTGAGCTAA
*
114330355 GTTGAGTTGAA
1 GTTGAGCT-AA
*
114330366 GTTGAGCTGA
1 GTTGAGCTAA
*
114330376 TTTGAGCTAA
1 GTTGAGCTAA
*
114330386 TTTGAGCT
1 GTTGAGCT
114330394 TGAAGGAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.24, C:0.08, G:0.31, T:0.37
Consensus pattern (10 bp):
GTTGAGCTAA
Found at i:114342622 original size:27 final size:27
Alignment explanation
Indices: 114342406--114342659 Score: 355
Period size: 27 Copynumber: 9.4 Consensus size: 27
114342396 ATTACTGAAA
** *
114342406 TACCCTCGATTTGTAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
114342433 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
114342460 CACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
114342487 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
114342514 CACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
114342541 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
114342568 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
114342595 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
114342622 TATCCTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
114342649 TACCCTCGATT
1 TACCCTCGATT
114342660 ATGAAATTAC
Statistics
Matches: 201, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 201 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:114342681 original size:27 final size:26
Alignment explanation
Indices: 114342651--114342814 Score: 121
Period size: 27 Copynumber: 6.1 Consensus size: 26
114342641 TACCGTTTTA
* *
114342651 CCCTCGATTATGAAATTACTAAAATAC
1 CCCT-GATTATAAAATTACCAAAATAC
** *
114342678 CCCTGTAGGATAGAATTACCAAAATAC
1 CCCTG-ATTATAAAATTACCAAAATAC
* * *
114342705 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCT-GATTATAAAATTACCAAAATAC
* * * * *
114342732 CACTGGTTTGTGAAATTACTAAAATAC
1 CCCT-GATTATAAAATTACCAAAATAC
* *
114342759 CCTTAATTTATAAAATTACCAAAATAC
1 CCCTGA-TTATAAAATTACCAAAATAC
* *
114342786 CCCTGATTTACAAAATTACAAAAATAC
1 CCCTGA-TTATAAAATTACCAAAATAC
114342813 CC
1 CC
114342815 TTGACTTTTT
Statistics
Matches: 107, Mismatches: 27, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
26 1 0.01
27 105 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (26 bp):
CCCTGATTATAAAATTACCAAAATAC
Found at i:114342730 original size:54 final size:53
Alignment explanation
Indices: 114342658--114342790 Score: 142
Period size: 54 Copynumber: 2.5 Consensus size: 53
114342648 TTACCCTCGA
* * *
114342658 TTATGAAATTACTAAAATACCCCTGTAGGAT-AGAATTACCAAAATACCCCTAGT
1 TTATAAAATTACCAAAATACCCCTGTAGG-TGA-AATTACCAAAATACCCCTAAT
* * * ** * *
114342712 TTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTACTAAAATACCCTTAAT
1 TTATAAAATTACCAAAATACCCCT-GTAGGTGAAATTACCAAAATACCCCTAAT
114342766 TTATAAAATTACCAAAATACCCCTG
1 TTATAAAATTACCAAAATACCCCTG
114342791 ATTTACAAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
53 1 0.02
54 59 0.92
55 4 0.06
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (53 bp):
TTATAAAATTACCAAAATACCCCTGTAGGTGAAATTACCAAAATACCCCTAAT
Found at i:114342801 original size:81 final size:79
Alignment explanation
Indices: 114342630--114342815 Score: 196
Period size: 81 Copynumber: 2.3 Consensus size: 79
114342620 TTTATCCTCA
*** *
114342630 ATTTACAAAATTACCGTTTTACCCTCGATTATGAAATTACTAAAATACCCCTGTAGGATAGAATT
1 ATTTACAAAATTACCGAAATACCCTCGATTATGAAATTACTAAAATACCCCTGTAGGATAAAATT
114342695 ACCAAAATACCCCT
66 ACCAAAATACCCCT
** * * * **
114342709 AGTTTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTACTAAAATA-CCCT-TAATTTATAA
1 A-TTTACAAAATTACCGAAATACC-CTCGATTATGAAATTACTAAAATACCCCTGT-A-GGATAA
114342772 AATTACCAAAATACCCCT
62 AATTACCAAAATACCCCT
**
114342790 GATTTACAAAATTACAAAAATACCCT
1 -ATTTACAAAATTACCGAAATACCCT
114342816 TGACTTTTTA
Statistics
Matches: 87, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
79 2 0.02
80 24 0.28
81 60 0.69
82 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (79 bp):
ATTTACAAAATTACCGAAATACCCTCGATTATGAAATTACTAAAATACCCCTGTAGGATAAAATT
ACCAAAATACCCCT
Found at i:114342802 original size:54 final size:54
Alignment explanation
Indices: 114342691--114342872 Score: 186
Period size: 54 Copynumber: 3.3 Consensus size: 54
114342681 TGTAGGATAG
* * * * * ***
114342691 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGA
1 AATTACTAAAATACCCTTAATTTATAAAATTACCAAAATACCACTGGTTTACAA
* *
114342745 AATTACTAAAATACCCTTAATTTATAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACTAAAATACCCTTAATTTATAAAATTACCAAAATACCACTGGTTTACAA
* * * * *
114342799 AATTACAAAAATACCCTTGACTTTTTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACTAAAATACCCTT-AATTTAT-AAAATTACCA-AAATACCACTGGTTTACAA
*
114342855 AATTACTGAAATACCCTT
1 AATTACTAAAATACCCTT
114342873 GGTTTGTAGA
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
54 61 0.58
55 6 0.06
56 39 0.37
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (54 bp):
AATTACTAAAATACCCTTAATTTATAAAATTACCAAAATACCACTGGTTTACAA
Found at i:114342865 original size:27 final size:27
Alignment explanation
Indices: 114342691--114342877 Score: 128
Period size: 27 Copynumber: 6.9 Consensus size: 27
114342681 TGTAGGATAG
* * * **
114342691 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTACAA
** ***
114342718 AATTACCGAAATACCAC-TGGTTTGTGA
1 AATTACTAAAATACC-CTTGGTTTACAA
** *
114342745 AATTACTAAAATACCCTTAATTTATAA
1 AATTACTAAAATACCCTTGGTTTACAA
* * *
114342772 AATTACCAAAATACCCCTGATTTACAA
1 AATTACTAAAATACCCTTGGTTTACAA
* *
114342799 AATTACAAAAATACCCTTGACTTTTTA-AA
1 AATTACTAAAATACCCTTG---GTTTACAA
*
114342828 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACTA-AAATACCCTTGGTTTACAA
*
114342855 AATTACTGAAATACCCTTGGTTT
1 AATTACTAAAATACCCTTGGTTT
114342878 GTAGATTTAC
Statistics
Matches: 131, Mismatches: 21, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 5 0.04
27 102 0.78
28 3 0.02
29 17 0.13
30 4 0.03
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGGTTTACAA
Found at i:114342888 original size:110 final size:108
Alignment explanation
Indices: 114342691--114342897 Score: 243
Period size: 110 Copynumber: 1.9 Consensus size: 108
114342681 TGTAGGATAG
* * * ***
114342691 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTACTAAAA
1 AATTACAAAAATACCCCTACTTTGTAAAATTACAGAAATACCACTGGTTTACAAAATTACTAAAA
*
114342756 TACCCTTAATTTATAAAATTACCAAAATACCCCTGATTTACAA
66 TACCCTTAATTTATAAAATTACCAAAACACCCCTGATTTACAA
* * * * *
114342799 AATTACAAAAATACCCTTGACTTTTTAAAAATTATAGAAATACCATTGGTTTACAAAATTACTGA
1 AATTACAAAAATACCCCT-ACTTTGT-AAAATTACAGAAATACCACTGGTTTACAAAATTACTAA
** * * *
114342864 AATACCCTTGGTTTGTAGATTTACCAAAACACCC
64 AATACCCTTAATTTATAAAATTACCAAAACACCC
114342898 TTGCAGGATG
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
108 16 0.20
109 5 0.06
110 59 0.74
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (108 bp):
AATTACAAAAATACCCCTACTTTGTAAAATTACAGAAATACCACTGGTTTACAAAATTACTAAAA
TACCCTTAATTTATAAAATTACCAAAACACCCCTGATTTACAA
Found at i:114342970 original size:27 final size:27
Alignment explanation
Indices: 114342918--114342995 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
114342908 AAATGACTAA
* **
114342918 AATACCCCTAATA-GGTAAAAAAACCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
*
114342945 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
* *
114342972 AATACCCTTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
114342996 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:114343845 original size:25 final size:24
Alignment explanation
Indices: 114343807--114343871 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 24
114343797 AGGAAGTGTT
*
114343807 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
114343831 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
114343856 AGAAAGGGTTTTGCCC
1 A-AAAGGGCTTTGCCC
114343872 TAATTATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 1 0.03
25 35 0.97
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:114344089 original size:42 final size:42
Alignment explanation
Indices: 114344025--114344115 Score: 173
Period size: 42 Copynumber: 2.2 Consensus size: 42
114344015 AGTCTCCCCG
*
114344025 AATGGGCTTGCATACATTCATTGACATTACATGTGATATTGA
1 AATGGGCTTGCATACATCCATTGACATTACATGTGATATTGA
114344067 AATGGGCTTGCATACATCCATTGACATTACATGTGATATTGA
1 AATGGGCTTGCATACATCCATTGACATTACATGTGATATTGA
114344109 AATGGGC
1 AATGGGC
114344116 CTAAGGGTCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AATGGGCTTGCATACATCCATTGACATTACATGTGATATTGA
Found at i:114344175 original size:31 final size:31
Alignment explanation
Indices: 114344139--114344253 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
114344129 CGTTTACAGT
*
114344139 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
114344170 AAAGGCTTCGGACCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
114344201 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
114344232 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
114344254 TCAAGACTAA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 75 0.94
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:114346757 original size:49 final size:49
Alignment explanation
Indices: 114346704--114346928 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
114346694 CTGGTACGCA
* * *
114346704 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
114346753 TAGTAGCCTGCACTTAGTACTACACACGTGACTAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
114346802 TAGTAGCCTGCACTTAATACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * ** ** *
114346852 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
114346903 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
114346929 TGCGACCTCA
Statistics
Matches: 152, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 76 0.50
50 42 0.28
51 33 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:114346872 original size:99 final size:98
Alignment explanation
Indices: 114346704--114346882 Score: 277
Period size: 99 Copynumber: 1.8 Consensus size: 98
114346694 CTGGTACGCA
* * ** *
114346704 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAATACTACACACGCGACCAACCATCCGATACACGTAGTAGCCTGCACTTA
114346769 GTACTACACACGTGACTAATTATCCGGTACACG
66 GTACTACACACGTGACTAATTATCCGGTACACG
* * *
114346802 TAGTAGCCTGCACTTAATACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACATAATACTACACACGCGACC-AACCATCCGATACACGTAGTAGCCTGCACTT
114346867 AGTACTACACACGTGA
65 AGTACTACACACGTGA
114346883 TCACAGTTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
98 29 0.40
99 43 0.60
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACATAATACTACACACGCGACCAACCATCCGATACACGTAGTAGCCTGCACTTA
GTACTACACACGTGACTAATTATCCGGTACACG
Found at i:114348911 original size:149 final size:150
Alignment explanation
Indices: 114348640--114348945 Score: 519
Period size: 149 Copynumber: 2.1 Consensus size: 150
114348630 AAAATCTATA
*
114348640 AAACA-ATGAACAAACACTCACACAGTAAGCCTAAATAGCTTAGTAAGTCATAAGCAAATAATTC
1 AAACATATGAACAAACACTCACACAATAAGCCTAAATAGCTTAGTAAGTCATAAGCAAATAATTC
** * *
114348704 ATTTTAATGACATACATAATTCAATTAAACTAGATGGAACCAAAAAAACCTTAGCCAAATGTAGA
66 ATTTTAATGACATACATAATTCAATTAAACTAGACCGAACCAAAAAAACCTTAACCAAATGTACA
*
114348769 TGTATCGTGCTTGCAAACTC
131 TGTATCATGCTTGCAAACTC
*
114348789 AAACATAT-AACAAACACTCACACAATAAGCCTAAATAGCTTAGTAAGTTATAAGCAAATAATTC
1 AAACATATGAACAAACACTCACACAATAAGCCTAAATAGCTTAGTAAGTCATAAGCAAATAATTC
114348853 ATTTTAATGACATACATAATTCAATTAAACTAGACCGAACCAAACAAAA-CTTAACCAAATGTAC
66 ATTTTAATGACATACATAATTCAATTAAACTAGACCGAACCAAA-AAAACCTTAACCAAATGTAC
114348917 ATGTATCATGCTTGCAAACTC
130 ATGTATCATGCTTGCAAACTC
114348938 AAACATAT
1 AAACATAT
114348946 CTCATAAACA
Statistics
Matches: 148, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
149 142 0.96
150 6 0.04
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.25
Consensus pattern (150 bp):
AAACATATGAACAAACACTCACACAATAAGCCTAAATAGCTTAGTAAGTCATAAGCAAATAATTC
ATTTTAATGACATACATAATTCAATTAAACTAGACCGAACCAAAAAAACCTTAACCAAATGTACA
TGTATCATGCTTGCAAACTC
Found at i:114349267 original size:43 final size:43
Alignment explanation
Indices: 114349200--114349326 Score: 141
Period size: 44 Copynumber: 2.9 Consensus size: 43
114349190 TCATACAACA
*
114349200 CCAACGTCCCAGAC-GTGGTCTTACATGTAATCACATATCGATG
1 CCAACGTCCCAGACAG-GGTCTTACACGTAATCACATATCGATG
* * *
114349243 CC-ACTGTCCCAGACAGGGTTTTACACGTAAATCATAAATCGATG
1 CCAAC-GTCCCAGACAGGGTCTTACACGT-AATCACATATCGATG
* * **
114349287 CCAACATCCCAGACATGGTCTTACACAAAATCACATATCG
1 CCAACGTCCCAGACAGGGTCTTACACGTAATCACATATCG
114349327 GAATCCTAAC
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
42 2 0.03
43 31 0.45
44 34 0.49
45 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
CCAACGTCCCAGACAGGGTCTTACACGTAATCACATATCGATG
Found at i:114353926 original size:18 final size:18
Alignment explanation
Indices: 114353900--114353936 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
114353890 TTTGCGATTA
114353900 AGTCACTATGCGCAAGGG
1 AGTCACTATGCGCAAGGG
*
114353918 AGTCGCTATGCGCAAGGG
1 AGTCACTATGCGCAAGGG
114353936 A
1 A
114353937 TGGTGAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.35, T:0.16
Consensus pattern (18 bp):
AGTCACTATGCGCAAGGG
Found at i:114355333 original size:46 final size:46
Alignment explanation
Indices: 114355283--114355451 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
114355273 TGGTTGAGCA
114355283 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
114355329 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
114355373 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
114355421 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
114355452 AGGGGCGGGT
Statistics
Matches: 102, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 3 0.03
45 7 0.07
46 71 0.70
47 7 0.07
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:114355437 original size:92 final size:93
Alignment explanation
Indices: 114355280--114355449 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
114355270 GGATGGTTGA
* *
114355280 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
114355345 TGAGT-CGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
114355372 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
114355437 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
114355450 ACAGGGGCGG
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 67 0.91
93 7 0.09
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:114362279 original size:39 final size:39
Alignment explanation
Indices: 114362226--114362371 Score: 215
Period size: 39 Copynumber: 3.7 Consensus size: 39
114362216 TATTCGAATG
*
114362226 ATAT-CGGGTTAAGTCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGATT
114362264 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGATT
* * * *
114362303 ATATCCGGGATAAGTCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGATT
114362342 ATATCCGGGCTAAGAGT-CGAAGGCATTTGT
1 ATATCCGGGCT-A-AGTCCGAAGGCATTTGT
114362372 ACGAGTTGCT
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
38 4 0.04
39 78 0.80
40 13 0.13
41 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGATT
Found at i:114374442 original size:51 final size:50
Alignment explanation
Indices: 114374282--114374445 Score: 202
Period size: 50 Copynumber: 3.2 Consensus size: 50
114374272 GTGTTACACC
* * * * *
114374282 TAATGCATGACATAATTTAAAGATACAAACTTTAACTAACATGGGAATTACA
1 TAATGCATGACAAAATTT-ATGATGCAAAC-TTAACTAACATGAGAGTTACA
* *
114374334 CAATGCATGACAAAATTTATGATGCAATCTTAACTAACATGAGAGTTACA
1 TAATGCATGACAAAATTTATGATGCAAACTTAACTAACATGAGAGTTACA
* ** *
114374384 TAATGCATGTCATTATTTGTGATGCAAACTTAACTAATCATGAGAGTTACA
1 TAATGCATGACAAAATTTATGATGCAAACTTAACTAA-CATGAGAGTTACA
114374435 TAATGCATGAC
1 TAATGCATGAC
114374446 TTATAAATGC
Statistics
Matches: 97, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
50 50 0.52
51 31 0.32
52 16 0.16
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (50 bp):
TAATGCATGACAAAATTTATGATGCAAACTTAACTAACATGAGAGTTACA
Found at i:114384749 original size:27 final size:27
Alignment explanation
Indices: 114384714--114384765 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
114384704 GTCATACATA
* *
114384714 TCATGGGGGCATATCAGTCATTTTACC
1 TCATAGGGGCATAACAGTCATTTTACC
*
114384741 TCATAGGGGTATAACAGTCATTTTA
1 TCATAGGGGCATAACAGTCATTTTA
114384766 TCAAATTGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (27 bp):
TCATAGGGGCATAACAGTCATTTTACC
Found at i:114384776 original size:27 final size:27
Alignment explanation
Indices: 114384719--114384777 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
114384709 ACATATCATG
* * **
114384719 GGGGCATATCAGTCATTTTACCTCATA
1 GGGGTATAACAGTCATTTTACCAAATA
* *
114384746 GGGGTATAACAGTCATTTTATCAAATT
1 GGGGTATAACAGTCATTTTACCAAATA
114384773 GGGGT
1 GGGGT
114384778 CTGGGTATAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (27 bp):
GGGGTATAACAGTCATTTTACCAAATA
Found at i:114386666 original size:46 final size:45
Alignment explanation
Indices: 114386610--114386783 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
114386600 TGATATGTGT
114386610 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGA
* * * * *
114386656 GCCAGTGTAAGA-ATGCCTGGGACATGCATCAGCCTCGAGATAT-ACCA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-C-A-TTATGA-GA
* *
114386703 GCTAGTGTAAGACATGTCTGGCACATGCATCGG--CATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATT---ATGAGA
114386749 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
114386784 TCGAGATATA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 22 0.21
46 47 0.45
47 16 0.15
48 17 0.16
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGA
Found at i:114386760 original size:93 final size:91
Alignment explanation
Indices: 114386610--114386823 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 91
114386600 TGATATGTGT
*
114386610 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGA-ATGCCT
1 GCTAGTGTAAGACATGTCT-GGACATGCATCGG-C-CATTACGAGAGCCAGTGTAAGACATGCCT
*
114386674 GGGACATGCATCAGCCTCGAGATATACCA
63 GGGACATGCATCAGCCTCGAGATATACAA
* *
114386703 GCTAGTGTAAGACATGTCTGGCACATGCATCGG-CATTGAGACGAGAGCTAGTGTAAGACATGTC
1 GCTAGTGTAAGACATGTCTGG-ACATGCATCGGCCATT---ACGAGAGCCAGTGTAAGACATGCC
*
114386767 TGGGACATGCATCGGCCTCGAGATATACAA
62 TGGGACATGCATCAGCCTCGAGATATACAA
* * *
114386797 GTTGGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCT-GGACATG
114386824 GTGATAGCTT
Statistics
Matches: 107, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
90 4 0.04
92 2 0.02
93 46 0.43
94 53 0.50
95 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (91 bp):
GCTAGTGTAAGACATGTCTGGACATGCATCGGCCATTACGAGAGCCAGTGTAAGACATGCCTGGG
ACATGCATCAGCCTCGAGATATACAA
Found at i:114386949 original size:47 final size:49
Alignment explanation
Indices: 114386843--114386972 Score: 160
Period size: 48 Copynumber: 2.7 Consensus size: 49
114386833 TGTTGTGTGT
* *
114386843 CAGTGTAAGACC-GTCTAGGACATGGCATCGACACCGATAGATGACAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACACCGATAGATGACAGC
***
114386891 CAGTGTAAGACCTGTTTGGGACATGGCATCGACTTTGAT-G-TG-CTAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACACCGATAGATGAC-AGC
*
114386938 CAGTGTAAGACCATGTTTGGGACATGGCGTCGACA
1 CAGTGTAAGACC-TGTTTGGGACATGGCATCGACA
114386973 TCTTATCCCA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
46 1 0.01
47 17 0.24
48 33 0.46
49 21 0.29
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTTTGGGACATGGCATCGACACCGATAGATGACAGC
Found at i:114389901 original size:26 final size:28
Alignment explanation
Indices: 114389817--114389928 Score: 144
Period size: 27 Copynumber: 4.2 Consensus size: 28
114389807 GAGGAAGCGT
*
114389817 TCTGGTGGCTTTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
114389844 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
114389872 TCTGGTGGCTC-GCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* **
114389898 TCTGGTGACTCTGTTAC-AATATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
114389924 TCTGG
1 TCTGG
114389929 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
26 24 0.31
27 42 0.55
28 11 0.14
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:114394327 original size:24 final size:24
Alignment explanation
Indices: 114394083--114394325 Score: 423
Period size: 24 Copynumber: 10.1 Consensus size: 24
114394073 GCAAAGACCA
114394083 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
114394107 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
114394131 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
114394155 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
114394179 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
114394203 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
114394227 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
114394251 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
114394275 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
114394299 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
114394323 TAT
1 TAT
114394326 AGTCACATTC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:114402316 original size:24 final size:24
Alignment explanation
Indices: 114402097--114402314 Score: 375
Period size: 24 Copynumber: 9.1 Consensus size: 24
114402087 GCAAAGACCA
114402097 TATGGCACTATGTGTGCG-TTTAC
1 TATGGCACTATGTGTGCGATTTAC
114402120 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
114402144 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
114402168 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
114402192 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
114402216 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
114402240 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
114402264 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
114402288 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
114402312 TAT
1 TAT
114402315 AGTCACATTC
Statistics
Matches: 188, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
23 18 0.10
24 170 0.90
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:114408023 original size:40 final size:40
Alignment explanation
Indices: 114407978--114408144 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
114407968 CGGAATATAA
114407978 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
114408018 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
114408058 CCGGACATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
114408098 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
114408137 CCGGATAT
1 CCGGATAT
114408145 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:114412849 original size:18 final size:17
Alignment explanation
Indices: 114412816--114412850 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
114412806 CATGACAGCC
*
114412816 CACATTTTTCATTTATT
1 CACATTTTTCACTTATT
114412833 CACATTTTTCTACTTATT
1 CACATTTTTC-ACTTATT
114412851 TTATAGACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (17 bp):
CACATTTTTCACTTATT
Found at i:114421004 original size:46 final size:46
Alignment explanation
Indices: 114420951--114421126 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
114420941 TATTTGGGCA
114420951 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
114420997 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
114421044 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
114421090 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
114421127 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:114421106 original size:93 final size:93
Alignment explanation
Indices: 114420947--114421118 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
114420937 GGGATATTTG
* *
114420947 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
114421012 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
114421040 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
114421105 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
114421119 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:114422474 original size:26 final size:28
Alignment explanation
Indices: 114422445--114422501 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
114422435 AATTTACCAT
114422445 AATCTCATGAT-CATAATTGC-TAC-CTC
1 AATCTCAT-ATCCATAATTGCTTACTCTC
114422471 AATCTCATATCGCATAATTGCTTACTCTC
1 AATCTCATATC-CATAATTGCTTACTCTC
114422500 AA
1 AA
114422502 GCTACTCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 2 0.07
26 8 0.30
27 9 0.33
28 3 0.11
29 5 0.19
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (28 bp):
AATCTCATATCCATAATTGCTTACTCTC
Found at i:114424129 original size:41 final size:42
Alignment explanation
Indices: 114424072--114424189 Score: 116
Period size: 41 Copynumber: 2.8 Consensus size: 42
114424062 TTTCGATATG
* *
114424072 TGATTTTGTGTAAGACCACATCTGGGAAGTTGGCATTG-ATT
1 TGATTTCGTGTAAGACCACATCTGGGAAGTTGGCATCGAATT
*
114424113 TGATTTCGTATAAGACC-CTATCTGGGACAG-TGGCATCGATATT
1 TGATTTCGTGTAAGACCAC-ATCTGGGA-AGTTGGCATCGA-ATT
* * * * *
114424156 TGATTACATGCAAGACCACGTCTGGGACGTTGGC
1 TGATTTCGTGTAAGACCACATCTGGGAAGTTGGC
114424190 GTTGTACGAG
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
40 1 0.02
41 30 0.48
42 3 0.05
43 27 0.44
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACATCTGGGAAGTTGGCATCGAATT
Found at i:114429773 original size:29 final size:29
Alignment explanation
Indices: 114429740--114429870 Score: 144
Period size: 29 Copynumber: 4.6 Consensus size: 29
114429730 GTGTCGAGAT
*
114429740 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
114429769 TGGCACTAAGTGTGCGTG-TGG-AATATT
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
114429796 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
** *
114429825 TGGCACTGTGTGTGCGAGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
114429852 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
114429871 AATCGAGTAG
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.27
28 9 0.10
29 54 0.63
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:114431656 original size:29 final size:29
Alignment explanation
Indices: 114431623--114431753 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
114431613 TGACGAGATC
*
114431623 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
114431652 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
114431681 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
114431710 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
114431739 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
114431754 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:114444946 original size:40 final size:39
Alignment explanation
Indices: 114444835--114444985 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
114444825 TTAATCACGT
* * *
114444835 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
114444875 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
114444915 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
114444955 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
114444986 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:114444969 original size:80 final size:79
Alignment explanation
Indices: 114444835--114444985 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
114444825 TTAATCACGT
*
114444835 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
114444900 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
114444915 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
114444978 CCGGATAT
64 CCGGATAT
114444986 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:114451019 original size:27 final size:27
Alignment explanation
Indices: 114450989--114451047 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
114450979 CGACTTGTAA
114450989 AATTACCAAAGTACTCTCAATTTACAG
1 AATTACCAAAGTACTCTCAATTTACAG
**** *
114451016 AATTACCGTTTTACTCTCAGTTTACAG
1 AATTACCAAAGTACTCTCAATTTACAG
114451043 AATTA
1 AATTA
114451048 TTGTTTTACC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (27 bp):
AATTACCAAAGTACTCTCAATTTACAG
Found at i:114451401 original size:27 final size:27
Alignment explanation
Indices: 114451008--114451399 Score: 450
Period size: 27 Copynumber: 14.5 Consensus size: 27
114450998 AGTACTCTCA
*
114451008 ATTTACAGAATTACCGTTTTACTCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
** *
114451034 AGTTTACAGAATTATTGTTTTACCCTTG
1 A-TTTACAGAATTACCGTTTTACCCTCG
** * *
114451062 ATTTACAGAATTACTATTTTACCGTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
114451089 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** *
114451116 ATTTGTAAAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
114451143 ATTTATAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
114451169 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
114451197 ATTTACAGAATTACCGTTTTACCC-CTA
1 ATTTACAGAATTACCGTTTTACCCTC-G
* * *
114451224 ATTTACATAATTACCGTTTTACCCCCA
1 ATTTACAGAATTACCGTTTTACCCTCG
* * * *
114451251 ATTTACATAACTATCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
114451278 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
114451305 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
114451332 ATTTATAGAATTACTGTTTTACCC-CTG
1 ATTTACAGAATTACCGTTTTACCCTC-G
* **
114451359 ATTTACAAAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
114451386 ATTTACAAAATTAC
1 ATTTACAGAATTAC
114451400 TAAAATACCC
Statistics
Matches: 319, Mismatches: 39, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
26 4 0.01
27 311 0.97
28 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:114451423 original size:27 final size:27
Alignment explanation
Indices: 114451392--114451463 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
114451382 CTCGATTTAC
* **
114451392 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* **
114451419 GAAATTACCGCAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
*
114451446 AAAACTACCAAAATACCC
1 AAAATTACCAAAATACCC
114451464 CTGTATGGTA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAATTTGT
Found at i:114452670 original size:25 final size:25
Alignment explanation
Indices: 114452641--114452688 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
114452631 TTATAATATG
* * *
114452641 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
114452666 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
114452689 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:114452757 original size:20 final size:20
Alignment explanation
Indices: 114452732--114452790 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
114452722 TAAATATGGT
114452732 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
114452752 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
114452772 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
114452791 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:114452772 original size:11 final size:11
Alignment explanation
Indices: 114452736--114452790 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
114452726 TATGGTATGT
114452736 ATGATATGCAC
1 ATGATATGCAC
* *
114452747 ATGAAATG--T
1 ATGATATGCAC
114452756 ATGATATGCAC
1 ATGATATGCAC
*
114452767 ATGATATG--T
1 ATGATATGCAC
114452776 ATGATATGCAC
1 ATGATATGCAC
114452787 ATGA
1 ATGA
114452791 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:114452932 original size:25 final size:24
Alignment explanation
Indices: 114452841--114452936 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
114452831 GAGGAAGTGA
114452841 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
114452865 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
114452889 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
114452913 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
114452937 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
24 55 0.83
25 11 0.17
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:114455361 original size:11 final size:11
Alignment explanation
Indices: 114455345--114455374 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
114455335 TTTCAAAAAA
114455345 AGTATCGATTT
1 AGTATCGATTT
114455356 AGTATCGATTT
1 AGTATCGATTT
114455367 AGTATCGA
1 AGTATCGA
114455375 CACCTACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (11 bp):
AGTATCGATTT
Done.