Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 80 of 187
Found at i:23385547 original size:22 final size:22
Alignment explanation
Indices: 23385487--23385544 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
23385477 AATCTTCAAG
23385487 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
23385506 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
23385528 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
23385545 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:23386953 original size:19 final size:19
Alignment explanation
Indices: 23386902--23386960 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
23386892 TCCTTATAAC
* *
23386902 ATAAATTATTGAATTTTTT
1 ATAAATTATTGAATCTCTT
* *
23386921 ACAAAAATATTTGAATCTCTT
1 A-TAAATTA-TTGAATCTCTT
23386942 ATAAATTATTGAATCTCTT
1 ATAAATTATTGAATCTCTT
23386961 GTAATGTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 12 0.38
20 10 0.31
21 10 0.31
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAAATTATTGAATCTCTT
Found at i:23387434 original size:19 final size:18
Alignment explanation
Indices: 23387372--23387434 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
23387362 ATTTACCGAG
23387372 TCTCTTACAAAATTATTAAA
1 TCTCTTA-AAAATTA-TAAA
* * *
23387392 TCTTTTATAAATGATAAA
1 TCTCTTAAAAATTATAAA
*
23387410 TTTCTTAAAAATTACTAAA
1 TCTCTTAAAAATTA-TAAA
23387429 TCTCTT
1 TCTCTT
23387435 TAATAACTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
18 14 0.41
19 14 0.41
20 6 0.18
ACGTcount: A:0.41, C:0.13, G:0.02, T:0.44
Consensus pattern (18 bp):
TCTCTTAAAAATTATAAA
Found at i:23387575 original size:20 final size:20
Alignment explanation
Indices: 23387533--23387575 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
23387523 ATAATATTTT
* *
23387533 AAATTACCGAATTTTTTACA
1 AAATTACCGAAGTTATTACA
* *
23387553 AAATTACTGAAGTTATTATA
1 AAATTACCGAAGTTATTACA
23387573 AAA
1 AAA
23387576 GTAATGAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (20 bp):
AAATTACCGAAGTTATTACA
Found at i:23387647 original size:20 final size:20
Alignment explanation
Indices: 23387541--23387648 Score: 67
Period size: 20 Copynumber: 5.5 Consensus size: 20
23387531 TTAAATTACC
* * *
23387541 GAATTTTTTACAAAATTACT
1 GAATTTCTTATAAAATTATT
* * * *
23387561 GAAGTTATTATAAAAGTAAT
1 GAATTTCTTATAAAATTATT
* * * *
23387581 GAATATATCA-AAAACTATT
1 GAATTTCTTATAAAATTATT
* *
23387600 AAATTTCTT-TAAAATGATT
1 GAATTTCTTATAAAATTATT
*
23387619 GATTTTCTTATAAAATTATT
1 GAATTTCTTATAAAATTATT
*
23387639 GAATCTCTTA
1 GAATTTCTTA
23387649 GTGATTAGCT
Statistics
Matches: 65, Mismatches: 21, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
19 26 0.40
20 39 0.60
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (20 bp):
GAATTTCTTATAAAATTATT
Found at i:23389011 original size:20 final size:20
Alignment explanation
Indices: 23388917--23388998 Score: 78
Period size: 20 Copynumber: 4.1 Consensus size: 20
23388907 ACAACATTGT
* * *
23388917 AAATTACTAAATTTTTTTAAA
1 AAATTACTGAA-TTTCTTATA
23388938 AAATTACTG-ATTCTCTTA-A
1 AAATTACTGAATT-TCTTATA
** *
23388957 ATTTTACTAAATTTCTTATA
1 AAATTACTGAATTTCTTATA
23388977 AAATTACTGAATTTCTTATA
1 AAATTACTGAATTTCTTATA
23388997 AA
1 AA
23388999 GTTATTAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
19 14 0.28
20 28 0.56
21 8 0.16
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (20 bp):
AAATTACTGAATTTCTTATA
Found at i:23389593 original size:162 final size:162
Alignment explanation
Indices: 23389407--23389727 Score: 606
Period size: 162 Copynumber: 2.0 Consensus size: 162
23389397 AAAATAAACC
23389407 TAAAGGAAATTAAAAATATAAAATAGTGACCAAAATGAAAACTTACTAAAGTTGGGTGATCATAA
1 TAAAGGAAATTAAAAATATAAAATAGTGACCAAAATGAAAACTTACTAAAGTTGGGTGATCATAA
* *
23389472 TGAGTGTATGTAATGACAAATTAATGATGAGTGGCTAAAATGATAAAAGTATGTAAAAGTTAAAT
66 TGAGTATATGTAATGACAAATTAATGACGAGTGGCTAAAATGATAAAAGTATGTAAAAGTTAAAT
23389537 GATCATTTGTGTAGTTTACCCAAAGAGATATT
131 GATCATTTGTGTAGTTTACCCAAAGAGATATT
* *
23389569 TAAAGGAAATTAAAAATATAAAATAGTGACCAAAATGAAAATTTATTAAAGTTGGGTGATCATAA
1 TAAAGGAAATTAAAAATATAAAATAGTGACCAAAATGAAAACTTACTAAAGTTGGGTGATCATAA
23389634 TGAGTATATGTAATGACAAATTAATGACGAGTGGCTAAAATGATAAAAGTATGTAAAAGTTAAAT
66 TGAGTATATGTAATGACAAATTAATGACGAGTGGCTAAAATGATAAAAGTATGTAAAAGTTAAAT
23389699 GATCATTTGTGTAGTTTACCCAAAGAGAT
131 GATCATTTGTGTAGTTTACCCAAAGAGAT
23389728 TTGTTCTATA
Statistics
Matches: 155, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
162 155 1.00
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.30
Consensus pattern (162 bp):
TAAAGGAAATTAAAAATATAAAATAGTGACCAAAATGAAAACTTACTAAAGTTGGGTGATCATAA
TGAGTATATGTAATGACAAATTAATGACGAGTGGCTAAAATGATAAAAGTATGTAAAAGTTAAAT
GATCATTTGTGTAGTTTACCCAAAGAGATATT
Found at i:23395283 original size:31 final size:30
Alignment explanation
Indices: 23395239--23395299 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
23395229 ATACAATATT
23395239 TTATAAAATTACATGAAAAATTATAAAAAAA
1 TTATAAAATTACAT-AAAAATTATAAAAAAA
*
23395270 TTATACAAA-TACATACAAATTATAAAAAAA
1 TTATA-AAATTACATAAAAATTATAAAAAAA
23395300 ATATTTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 15 0.54
31 10 0.36
32 3 0.11
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.28
Consensus pattern (30 bp):
TTATAAAATTACATAAAAATTATAAAAAAA
Found at i:23398288 original size:20 final size:20
Alignment explanation
Indices: 23398254--23398364 Score: 98
Period size: 20 Copynumber: 5.5 Consensus size: 20
23398244 TATATTTTTG
23398254 CACTTCGGTGCCCTTGTTTA
1 CACTTCGGTGCCCTTGTTTA
* * * * *
23398274 CATTTTGGTGTCCTTGATTG
1 CACTTCGGTGCCCTTGTTTA
*
23398294 CACTCCGGTGCCCTTGTTTA
1 CACTTCGGTGCCCTTGTTTA
* * *
23398314 CACTTCGGTGTCCATGTTTG
1 CACTTCGGTGCCCTTGTTTA
* *
23398334 CACTTCGGTTCCCCTT-TTAA
1 CACTTCGG-TGCCCTTGTTTA
*
23398354 CACTACGGTGC
1 CACTTCGGTGC
23398365 TCCGTGGTGT
Statistics
Matches: 68, Mismatches: 22, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
19 2 0.03
20 62 0.91
21 4 0.06
ACGTcount: A:0.12, C:0.29, G:0.21, T:0.39
Consensus pattern (20 bp):
CACTTCGGTGCCCTTGTTTA
Found at i:23398357 original size:40 final size:40
Alignment explanation
Indices: 23398250--23398342 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
23398240 TGTCTATATT
* * *
23398250 TTTGCACTTCGGTGCCCTTGTTTACATTTTGGTGTCCTTG
1 TTTGCACTTCGGTGCCCTTGTTTACACTTCGGTGTCCATG
* *
23398290 ATTGCACTCCGGTGCCCTTGTTTACACTTCGGTGTCCATG
1 TTTGCACTTCGGTGCCCTTGTTTACACTTCGGTGTCCATG
23398330 TTTGCACTTCGGT
1 TTTGCACTTCGGT
23398343 TCCCCTTTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.10, C:0.26, G:0.23, T:0.42
Consensus pattern (40 bp):
TTTGCACTTCGGTGCCCTTGTTTACACTTCGGTGTCCATG
Found at i:23408773 original size:42 final size:42
Alignment explanation
Indices: 23408714--23408817 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
23408704 AGTGATTCGG
23408714 GGAATCAGCACTTAGCAACCC-TTTCAAATTCAAAAAT-ATGGT
1 GGAATCAGCACTTAGCAACCCTTTTCAAATT-AAAAATAAT-GT
* *
23408756 GGAATCAGCACTTAGCAACCCTTTTCACATTTAAAATAATGT
1 GGAATCAGCACTTAGCAACCCTTTTCAAATTAAAAATAATGT
*
23408798 GGTATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
23408818 ACCAATGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
42 47 0.82
43 10 0.18
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCTTTTCAAATTAAAAATAATGT
Found at i:23408982 original size:102 final size:103
Alignment explanation
Indices: 23408756--23408985 Score: 329
Period size: 103 Copynumber: 2.2 Consensus size: 103
23408746 AAAATATGGT
** * *
23408756 GGAATCAGCACTTAGCAACCCTTTTCACATTTAAAATAATGTGGTATCAGCACTTAGCAACCACC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAACGTGGAATCAGCACTTAGCAACCACC
* ** *
23408821 AATGATTTTGGGGAATCAGCACTTAGCAACCCCTTGGG
66 AATGATATCAGGGAATCAGCACTTAGCAACCCATTGGG
*
23408859 GGAATCAGCACTTATCAACCCCCTTCACATTTAAAAT-ACGATGGAATCAGCACTTAGCAACCAC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAACG-TGGAATCAGCACTTAGCAACCAC
* *
23408923 CAATGA-ATCAGGTAATCAGCACTTAGCAACTCATTGGG
65 CAATGATATCAGGGAATCAGCACTTAGCAACCCATTGGG
*
23408961 GGAATTAGCACTTAGCAACCCCCTT
1 GGAATCAGCACTTAGCAACCCCCTT
23408986 TATATTCAAT
Statistics
Matches: 113, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
102 51 0.45
103 62 0.55
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (103 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAACGTGGAATCAGCACTTAGCAACCACC
AATGATATCAGGGAATCAGCACTTAGCAACCCATTGGG
Found at i:23416181 original size:43 final size:42
Alignment explanation
Indices: 23416118--23416222 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 42
23416108 AATGATTCGG
* *
23416118 GGAATCAACACTTAGTAACCCCTTTCACATTCAAAA-ACACGGT
1 GGAATCAGCACTTAGAAACCCCTTTCACATTCAAAATA-A-GGT
* *
23416161 GGAATCAGCACTTAGAAACCCCTTTCACATTTAAAATAATGT
1 GGAATCAGCACTTAGAAACCCCTTTCACATTCAAAATAAGGT
* *
23416203 GGGATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGAAACC
23416223 ACCAATGATT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 20 0.36
43 34 0.62
44 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (42 bp):
GGAATCAGCACTTAGAAACCCCTTTCACATTCAAAATAAGGT
Found at i:23416248 original size:33 final size:33
Alignment explanation
Indices: 23416206--23416357 Score: 109
Period size: 33 Copynumber: 4.5 Consensus size: 33
23416196 ATAATGTGGG
*
23416206 ATCAGCACTTAGCAACCACCAATGATTCAGGGA
1 ATCAGCACTTAGCAACCACCAATGATTCGGGGA
* *
23416239 ATCAGCACTTAG-AA--ACC---CATTGGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTCGGGGA
* * *
23416266 ATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGA
1 ATCAGCACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGA
*
23416308 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTCGGGGA
*
23416341 ATCAGCACTTAGTAACC
1 ATCAGCACTTAGCAACC
23416358 CCTTGGGGGA
Statistics
Matches: 92, Mismatches: 12, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
27 19 0.21
28 2 0.02
30 3 0.03
31 1 0.01
32 2 0.02
33 32 0.35
34 4 0.04
36 1 0.01
38 1 0.01
39 2 0.02
41 7 0.08
42 18 0.20
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACCAATGATTCGGGGA
Found at i:23416341 original size:102 final size:102
Alignment explanation
Indices: 23416161--23416389 Score: 368
Period size: 102 Copynumber: 2.2 Consensus size: 102
23416151 AAAACACGGT
* * * *
23416161 GGAATCAGCACTTAGAAACCCCTTTCACATTTAAAATAATGTGGGATCAGCACTTAGCAACCACC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAAGGTGGAATCAGCACTTAGCAACCACC
*
23416226 AATGATTCAGGGAATCAGCACTTAGAAACCCATTGGG
66 AATGAATCAGGGAATCAGCACTTAGAAACCCATTGGG
*
23416263 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAAGGTGGAATCAGCACTTAGCAACCACC
* * *
23416328 AATGAATCGGGGAATCAGCACTTAGTAACCCCTTGGG
66 AATGAATCAGGGAATCAGCACTTAGAAACCCATTGGG
*
23416365 GGAATTAGCACTTAGCAACCCCCTT
1 GGAATCAGCACTTAGCAACCCCCTT
23416390 TATATTCAAT
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 117 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (102 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAAGGTGGAATCAGCACTTAGCAACCACC
AATGAATCAGGGAATCAGCACTTAGAAACCCATTGGG
Found at i:23421047 original size:22 final size:22
Alignment explanation
Indices: 23421021--23421333 Score: 266
Period size: 22 Copynumber: 14.2 Consensus size: 22
23421011 AGCAATTATC
* * *
23421021 CAACATTCAGATATCATTTAAT
1 CAACATTTAGACAACATTTAAT
*
23421043 TAACATTTAGACAACATTTAAT
1 CAACATTTAGACAACATTTAAT
* * * *
23421065 CAACAATTGGACATCATTCAAT
1 CAACATTTAGACAACATTTAAT
*
23421087 CAACATTTAGATAACATTTAAT
1 CAACATTTAGACAACATTTAAT
* * * *
23421109 CAACAATTGGGCAACATTCAAT
1 CAACATTTAGACAACATTTAAT
* * *
23421131 CAATATTTGGACAGCATTTAAT
1 CAACATTTAGACAACATTTAAT
* * *
23421153 CAACAATTGGACAACATTCAAT
1 CAACATTTAGACAACATTTAAT
* * *
23421175 CAATATTTGGACAGCATTTAAT
1 CAACATTTAGACAACATTTAAT
* * *
23421197 CAACAATTGGACAACATTCAAT
1 CAACATTTAGACAACATTTAAT
* * *
23421219 CAATATTTGGACAGCATTTAAT
1 CAACATTTAGACAACATTTAAT
* * * *
23421241 CAACAATTGGACAGCATTCAAT
1 CAACATTTAGACAACATTTAAT
* *
23421263 CAACATTTGGACAGCATTTAAT
1 CAACATTTAGACAACATTTAAT
* * *
23421285 CAACAATTGGACAACATTCAAT
1 CAACATTTAGACAACATTTAAT
* * *
23421307 CAATATTTGGACAGCATTTAAT
1 CAACATTTAGACAACATTTAAT
23421329 CAACA
1 CAACA
23421334 ATTTTTACTT
Statistics
Matches: 238, Mismatches: 53, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 238 1.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (22 bp):
CAACATTTAGACAACATTTAAT
Found at i:23421049 original size:11 final size:11
Alignment explanation
Indices: 23421035--23421333 Score: 73
Period size: 11 Copynumber: 27.2 Consensus size: 11
23421025 ATTCAGATAT
*
23421035 CATTTAATTAA
1 CATTTAATCAA
23421046 CATTTAGA-CAA
1 CATTTA-ATCAA
23421057 CATTTAATCAA
1 CATTTAATCAA
** *
23421068 CAATTGGA-CAT
1 C-ATTTAATCAA
*
23421079 CATTCAATCAA
1 CATTTAATCAA
23421090 CATTTAGAT-AA
1 CATTTA-ATCAA
23421101 CATTTAATCAA
1 CATTTAATCAA
* ***
23421112 CAATTGGGCAA
1 CATTTAATCAA
*
23421123 CATTCAATCAA
1 CATTTAATCAA
* * *
23421134 TATTTGGA-CAG
1 CATTT-AATCAA
23421145 CATTTAATCAA
1 CATTTAATCAA
**
23421156 CAATTGGA-CAA
1 C-ATTTAATCAA
*
23421167 CATTCAATCAA
1 CATTTAATCAA
* * *
23421178 TATTTGGA-CAG
1 CATTT-AATCAA
23421189 CATTTAATCAA
1 CATTTAATCAA
**
23421200 CAATTGGA-CAA
1 C-ATTTAATCAA
*
23421211 CATTCAATCAA
1 CATTTAATCAA
* * *
23421222 TATTTGGA-CAG
1 CATTT-AATCAA
23421233 CATTTAATCAA
1 CATTTAATCAA
** *
23421244 CAATTGGA-CAG
1 C-ATTTAATCAA
*
23421255 CATTCAATCAA
1 CATTTAATCAA
* *
23421266 CATTTGGA-CAG
1 CATTT-AATCAA
23421277 CATTTAATCAA
1 CATTTAATCAA
**
23421288 CAATTGGA-CAA
1 C-ATTTAATCAA
*
23421299 CATTCAATCAA
1 CATTTAATCAA
* * *
23421310 TATTTGGA-CAG
1 CATTT-AATCAA
23421321 CATTTAATCAA
1 CATTTAATCAA
23421332 CA
1 CA
23421334 ATTTTTACTT
Statistics
Matches: 196, Mismatches: 68, Indels: 48
0.63 0.22 0.15
Matches are distributed among these distances:
10 28 0.14
11 140 0.71
12 28 0.14
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.30
Consensus pattern (11 bp):
CATTTAATCAA
Found at i:23421081 original size:44 final size:44
Alignment explanation
Indices: 23421047--23421336 Score: 490
Period size: 44 Copynumber: 6.6 Consensus size: 44
23421037 TTTAATTAAC
* * * *
23421047 ATTTAGACAACATTTAATCAACAATTGGACATCATTCAATCAAC
1 ATTTGGACAGCATTTAATCAACAATTGGACAACATTCAATCAAT
* * * *
23421091 ATTTAGATAACATTTAATCAACAATTGGGCAACATTCAATCAAT
1 ATTTGGACAGCATTTAATCAACAATTGGACAACATTCAATCAAT
23421135 ATTTGGACAGCATTTAATCAACAATTGGACAACATTCAATCAAT
1 ATTTGGACAGCATTTAATCAACAATTGGACAACATTCAATCAAT
23421179 ATTTGGACAGCATTTAATCAACAATTGGACAACATTCAATCAAT
1 ATTTGGACAGCATTTAATCAACAATTGGACAACATTCAATCAAT
* *
23421223 ATTTGGACAGCATTTAATCAACAATTGGACAGCATTCAATCAAC
1 ATTTGGACAGCATTTAATCAACAATTGGACAACATTCAATCAAT
23421267 ATTTGGACAGCATTTAATCAACAATTGGACAACATTCAATCAAT
1 ATTTGGACAGCATTTAATCAACAATTGGACAACATTCAATCAAT
23421311 ATTTGGACAGCATTTAATCAACAATT
1 ATTTGGACAGCATTTAATCAACAATT
23421337 TTTACTTCAA
Statistics
Matches: 234, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 234 1.00
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (44 bp):
ATTTGGACAGCATTTAATCAACAATTGGACAACATTCAATCAAT
Found at i:23422261 original size:44 final size:42
Alignment explanation
Indices: 23422114--23422266 Score: 134
Period size: 42 Copynumber: 3.6 Consensus size: 42
23422104 CGTACAATTG
* * * * * *
23422114 CAACGTCCTAGACGTGATCTTTCATGTAATCAAACAACGATGC
1 CAACGTCCCAGACGTGGTCTTACACGTAATCAAA-ATCGAAGC
* *
23422157 C-ACTGTCCCAGAC-TGGGTCTTACACGTAATC-ATATACGACGC
1 CAAC-GTCCCAGACGT-GGTCTTACACGTAATCAAAAT-CGAAGC
*
23422199 CAATGTCCCAGA-GATGGTCTTACACGTAAATCTAAAATCGAAGC
1 CAACGTCCCAGACG-TGGTCTTACACGT-AATC-AAAATCGAAGC
23422243 CAACGTCCCAGACGTGGTCTTACA
1 CAACGTCCCAGACGTGGTCTTACA
23422267 TGATGTCACA
Statistics
Matches: 89, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
41 1 0.01
42 30 0.34
43 28 0.31
44 26 0.29
45 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
CAACGTCCCAGACGTGGTCTTACACGTAATCAAAATCGAAGC
Found at i:23446111 original size:6 final size:6
Alignment explanation
Indices: 23446100--23446130 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
23446090 CAGGAAGTGA
23446100 TGCCCT TGCCCT TGCCCT TGCCCT TGGCCCT
1 TGCCCT TGCCCT TGCCCT TGCCCT T-GCCCT
23446131 GACGCTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.00, C:0.48, G:0.19, T:0.32
Consensus pattern (6 bp):
TGCCCT
Found at i:23451399 original size:477 final size:477
Alignment explanation
Indices: 23450496--23451519 Score: 1818
Period size: 477 Copynumber: 2.1 Consensus size: 477
23450486 TTGTTTAGCG
**
23450496 TACTGAGGT-AAAACTTAAATGATGCAGGAAGTAATTCAAGAGAAGAATGATCTTGCTAAAAAGC
1 TACTGAGGTGAAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGC
* *
23450560 TGAGGACCACCGAAGCTGATAAGAACAGCCTCGTTGAAGAATTGAGAACAGAAGTTGAAGCTCAA
66 TGAGGAACACCGAAGCTGATAAGAACAGACTCGTTGAAGAATTGAGAACAGAAGTTGAAGCTCAA
* *
23450625 AACGCAGAACAACAGTCACTTTCAAATGAAGTCCAGATGTTGAAGCAAGAACTTAAGCAGATCAA
131 AAAGCAGAACAACAGTCACTTTCAAATGAAGTCCAGACGTTGAAGCAAGAACTTAAGCAGATCAA
23450690 AAGAGAGAAACAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATGATGAGCTGGAAG
196 AAGAGAGAAACAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATGATGAGCTGGAAG
* *
23450755 TGAAGTTAAATAGTTTGCAGGTTTGTTTCTTCTTACTTTCTCTGGGTCCTACTTATGTTAATGGT
261 TGAAGTTAAATAGTTTGCAGGTTTGTCTCTTCTTACTTTCTCTGGGTCCTACTTATGATAATGGT
*
23450820 TCTTTCTACCGTAAATCTAAAACTTCACATTCAGCTCAATTTTGTTTTGCATCTGACCTGGTTGT
326 TCTTTCTACCATAAATCTAAAACTTCACATTCAGCTCAATTTTGTTTTGCATCTGACCTGGTTGT
* * *
23450885 CCTTGCTAGATTATCCTCGCAGAAGGACAAAAGCCTCTATTTGCTGTAAAATGTTTCCTAGTGCC
391 CCTTGCTAGAGTATCCTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGCC
23450950 CTTTGCCTTTGAGGAGTCATCT
456 CTTTGCCTTTGAGGAGTCATCT
23450972 TACTGAGGTGAAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGC
1 TACTGAGGTGAAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGC
* * *
23451037 TGAGGAAGACTGAAGCTGATAAGAACAGATTCGTTGAAGAATTGAGAACAGAAGTTGAAGCTCAA
66 TGAGGAACACCGAAGCTGATAAGAACAGACTCGTTGAAGAATTGAGAACAGAAGTTGAAGCTCAA
*
23451102 AAAGCAGAACAACAGTCACTTTCAAATGAAGTCCAGACGTTGAAGCAAGAACTTAGGCAGATCAA
131 AAAGCAGAACAACAGTCACTTTCAAATGAAGTCCAGACGTTGAAGCAAGAACTTAAGCAGATCAA
23451167 AAGAGAGAAACAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATGATGAGCTGGAAG
196 AAGAGAGAAACAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATGATGAGCTGGAAG
* *
23451232 TGAAGTTGAATAGTTTGCAGGTTTGTCTCTTCTTACTTTCTCTGGGT-CTCAGTTATGATAATGG
261 TGAAGTTAAATAGTTTGCAGGTTTGTCTCTTCTTACTTTCTCTGGGTCCT-ACTTATGATAATGG
*
23451296 TTCTTTCTACCATAAATCTAAAACTTCACATTCAGTTCAATTTTGTTTTGCATCTGACCTGGTTG
325 TTCTTTCTACCATAAATCTAAAACTTCACATTCAGCTCAATTTTGTTTTGCATCTGACCTGGTTG
*
23451361 TCCTTGCTAGAGTATCTTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGC
390 TCCTTGCTAGAGTATCCTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGC
23451426 CCTTTGCCTTTGAGGAGTCATCT
455 CCTTTGCCTTTGAGGAGTCATCT
* * *
23451449 TACTGTGGTGAAAACTTAAATGATGCAGGCAGTAGCTCAAGAGAAGAATGATCTTGCTGAAAAGC
1 TACTGAGGTGAAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGC
23451514 TGAGGA
66 TGAGGA
23451520 CTGCAGAAGC
Statistics
Matches: 523, Mismatches: 23, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
476 11 0.02
477 512 0.98
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (477 bp):
TACTGAGGTGAAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGC
TGAGGAACACCGAAGCTGATAAGAACAGACTCGTTGAAGAATTGAGAACAGAAGTTGAAGCTCAA
AAAGCAGAACAACAGTCACTTTCAAATGAAGTCCAGACGTTGAAGCAAGAACTTAAGCAGATCAA
AAGAGAGAAACAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATGATGAGCTGGAAG
TGAAGTTAAATAGTTTGCAGGTTTGTCTCTTCTTACTTTCTCTGGGTCCTACTTATGATAATGGT
TCTTTCTACCATAAATCTAAAACTTCACATTCAGCTCAATTTTGTTTTGCATCTGACCTGGTTGT
CCTTGCTAGAGTATCCTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGCC
CTTTGCCTTTGAGGAGTCATCT
Found at i:23455899 original size:6 final size:6
Alignment explanation
Indices: 23455890--23455916 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23455880 GAAGAAGTGA
23455890 GTGGCG GTGGCG GTGGCG GTGGCG GTG
1 GTGGCG GTGGCG GTGGCG GTGGCG GTG
23455917 TTTTAGCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.67, T:0.19
Consensus pattern (6 bp):
GTGGCG
Found at i:23460973 original size:50 final size:50
Alignment explanation
Indices: 23460861--23460995 Score: 182
Period size: 50 Copynumber: 2.7 Consensus size: 50
23460851 TCGGTTCACA
** *
23460861 TAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAG
1 TAGCCTGCACATAGTACTACACACGTGA-CCTAGCTATCCGGTACACATAG
* * * *
23460912 TAGCCTGCACATAGTACTACACATGCGACCTATC-ATTCCGGTACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCTAGCTA-TCCGGTACACATAG
23460962 TAGCCTGCACATAGTACTACACACGTGACCTAGC
1 TAGCCTGCACATAGTACTACACACGTGACCTAGC
23460996 AACTTCACTC
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 46 0.63
51 26 0.36
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (50 bp):
TAGCCTGCACATAGTACTACACACGTGACCTAGCTATCCGGTACACATAG
Found at i:23467323 original size:20 final size:19
Alignment explanation
Indices: 23467278--23467332 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
23467268 GAAAATTATT
*
23467278 ATTTTTAAATTTTTTATAT
1 ATTTTTAAATTTTTTATAA
* *
23467297 ATATTTTAGATTTTTTTTGAA
1 AT-TTTTAAATTTTTTAT-AA
23467318 ATTTTTATAATTTTT
1 ATTTTTA-AATTTTT
23467333 AAAAAATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 18 0.62
21 9 0.31
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTTTAAATTTTTTATAA
Found at i:23474844 original size:21 final size:21
Alignment explanation
Indices: 23474819--23474858 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23474809 TATTTAATTT
*
23474819 TTTTTCTTTTTTTTTTCTAGA
1 TTTTTCGTTTTTTTTTCTAGA
*
23474840 TTTTTGGTTTTTTTTTCTA
1 TTTTTCGTTTTTTTTTCTA
23474859 TGATCTGTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTTTCGTTTTTTTTTCTAGA
Found at i:23475115 original size:15 final size:15
Alignment explanation
Indices: 23475060--23475112 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
23475050 TTTTTTTACT
23475060 TTATATTATATTTTAG
1 TTAT-TTATATTTTAG
* *
23475076 TTATTTATATTTGAA
1 TTATTTATATTTTAG
* *
23475091 ATA-TTATGTTTTAG
1 TTATTTATATTTTAG
23475105 TTATTTAT
1 TTATTTAT
23475113 GTTAATATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
14 10 0.34
15 15 0.52
16 4 0.14
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (15 bp):
TTATTTATATTTTAG
Found at i:23487301 original size:46 final size:45
Alignment explanation
Indices: 23487137--23487301 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 45
23487127 CAGGTCTTAA
*
23487137 TATTCCTGTATTCTCGAGTCCACAACATATGCATGAGCTAGAAACCT
1 TATT-CTGTATTCTCGAGTCCACAACATATGCAGGAGCTAGAAA-CT
* * * *
23487184 AAATT-TGTATTATCGAGTCCACAACATATACAGGA-CTCGAAACT
1 -TATTCTGTATTCTCGAGTCCACAACATATGCAGGAGCTAGAAACT
* * * **
23487228 TATTCTCATATTCTCAAGTTCGTAACATATGCAGGAGCTTAG-AACT
1 TATTCT-GTATTCTCGAGTCCACAACATATGCAGGAGC-TAGAAACT
23487274 TATTCCTGTATTCTCGAGTCCACAACAT
1 TATT-CTGTATTCTCGAGTCCACAACAT
23487302 TGTAAAAGCT
Statistics
Matches: 93, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
43 3 0.03
44 3 0.03
45 28 0.30
46 52 0.56
47 4 0.04
48 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (45 bp):
TATTCTGTATTCTCGAGTCCACAACATATGCAGGAGCTAGAAACT
Found at i:23493246 original size:22 final size:22
Alignment explanation
Indices: 23493217--23493271 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
23493207 AGCACTAATG
23493217 AACAGAGAGCACTA-AAGTGCTA
1 AACAGAGAGCA-TAGAAGTGCTA
* *
23493239 TACAGAGAGCATAGATGTGCTA
1 AACAGAGAGCATAGAAGTGCTA
23493261 AACAGAGAGCA
1 AACAGAGAGCA
23493272 ATGACGTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.15
Consensus pattern (22 bp):
AACAGAGAGCATAGAAGTGCTA
Found at i:23493280 original size:22 final size:22
Alignment explanation
Indices: 23493217--23493283 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
23493207 AGCACTAATG
* *
23493217 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCAATGAAGTGCTA
* *
23493239 TACAGAGAGC-ATAGATGTGCTA
1 AACAGAGAGCAAT-GAAGTGCTA
*
23493261 AACAGAGAGCAATGACGTGCTA
1 AACAGAGAGCAATGAAGTGCTA
23493283 A
1 A
23493284 TAATCAGAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.92
23 2 0.05
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCAATGAAGTGCTA
Found at i:23493605 original size:16 final size:15
Alignment explanation
Indices: 23493579--23493617 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
23493569 TCATAGTTCC
23493579 ATAATATTTTATTTT
1 ATAATATTTTATTTT
23493594 ATAATGATTTTATTTT
1 ATAAT-ATTTTATTTT
23493610 ATAA-ATTT
1 ATAATATTT
23493618 AAATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.17
15 5 0.22
16 14 0.61
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATAATATTTTATTTT
Found at i:23495743 original size:20 final size:19
Alignment explanation
Indices: 23495718--23495789 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 19
23495708 AAAATTAAAA
23495718 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
23495737 CAAAAATTCAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
* *
23495757 TAAAATTCTAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
23495776 AAAAATTCTAAAAT
1 AAAAATTC-AAAAT
23495790 TTATATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.09
19 19 0.41
20 23 0.50
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:23495778 original size:18 final size:18
Alignment explanation
Indices: 23495739--23495794 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 18
23495729 ATAATTTTCA
* *
23495739 AAAATTCAAAATAATTTTT
1 AAAATTCTAAAT-ATTTAT
23495758 AAAATTCTAAATATTTAT
1 AAAATTCTAAATATTTAT
23495776 AAAAATTCTAAA-ATTTAT
1 -AAAATTCTAAATATTTAT
23495794 A
1 A
23495795 TTTTTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 1 0.03
18 11 0.32
19 22 0.65
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTCTAAATATTTAT
Found at i:23496827 original size:26 final size:26
Alignment explanation
Indices: 23496791--23496844 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
23496781 TATTTGGAGC
23496791 TTATAGGTACCAAAAAAATTAAAATT
1 TTATAGGTACCAAAAAAATTAAAATT
23496817 TTATAGGTACCAAAAAAATTAAAATT
1 TTATAGGTACCAAAAAAATTAAAATT
23496843 TT
1 TT
23496845 CTTGTGGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (26 bp):
TTATAGGTACCAAAAAAATTAAAATT
Found at i:23507718 original size:50 final size:50
Alignment explanation
Indices: 23507601--23507783 Score: 172
Period size: 50 Copynumber: 3.7 Consensus size: 50
23507591 GAATATAACA
* * * * * * *
23507601 TGCCAAAGCTATGTCCTAGACATAGTCTTACATGAGATGTT-TCTTGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGA-GTTCTCATATAGG
* *
23507650 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGAGTTCTCATATAGG
* ** * ** * *
23507700 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGAGTTCTCATATAGG
* *
23507750 TGCCAACGCCATGTCCCAAACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
23507784 GGACCTCTCT
Statistics
Matches: 108, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 3 0.03
49 36 0.33
50 69 0.64
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGAGTTCTCATATAGG
Found at i:23507787 original size:50 final size:50
Alignment explanation
Indices: 23507650--23507847 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 50
23507640 TTTCTTGTAC
* * * ** * *
23507650 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
* **
23507700 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
* * *
23507750 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCTTAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT---TGG
* * *
23507806 TGCCAATTCCATGTCTCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23507848 TTACCCAAAT
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 78 0.64
53 4 0.03
56 39 0.32
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
Found at i:23512424 original size:120 final size:120
Alignment explanation
Indices: 23512268--23512511 Score: 479
Period size: 120 Copynumber: 2.0 Consensus size: 120
23512258 GATAAAGGTT
23512268 AGGTATATTTGGTCTATTAAGTGACATAATTGAGAAGTATGATAGGTGGGTCATTCTATGTGTGA
1 AGGTATATTTGGTCTATTAAGTGACATAATTGAGAAGTATGATAGGTGGGTCATTCTATGTGTGA
23512333 GATAATGGTATAATTTGGCTTGGTTAAGTAAGTTAAAAGGATGATTATACCATTG
66 GATAATGGTATAATTTGGCTTGGTTAAGTAAGTTAAAAGGATGATTATACCATTG
*
23512388 AGGTATATTTGGTCTATTAAGTGACATAATTTAGAAGTATGATAGGTGGGTCATTCTATGTGTGA
1 AGGTATATTTGGTCTATTAAGTGACATAATTGAGAAGTATGATAGGTGGGTCATTCTATGTGTGA
23512453 GATAATGGTATAATTTGGCTTGGTTAAGTAAGTTAAAAGGATGATTATACCATTG
66 GATAATGGTATAATTTGGCTTGGTTAAGTAAGTTAAAAGGATGATTATACCATTG
23512508 AGGT
1 AGGT
23512512 TGCACTGATT
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 123 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (120 bp):
AGGTATATTTGGTCTATTAAGTGACATAATTGAGAAGTATGATAGGTGGGTCATTCTATGTGTGA
GATAATGGTATAATTTGGCTTGGTTAAGTAAGTTAAAAGGATGATTATACCATTG
Found at i:23516947 original size:24 final size:23
Alignment explanation
Indices: 23516904--23516956 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
23516894 TACTTCACTT
* *
23516904 GAAAAAAAACGAAAAGAAAAATA
1 GAAAAAAAACGAAAACAAAAAAA
23516927 GAAAAGAAAA-GAAGAACAAAAAAA
1 GAAAA-AAAACGAA-AACAAAAAAA
23516951 GAAAAA
1 GAAAAA
23516957 GGAAAGGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.79, C:0.04, G:0.15, T:0.02
Consensus pattern (23 bp):
GAAAAAAAACGAAAACAAAAAAA
Found at i:23517889 original size:50 final size:45
Alignment explanation
Indices: 23517831--23517973 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
23517821 GGTTGCAATT
23517831 AAAAAGATTGAAGTCACAACGGCGAATCTTACTTCCCTGGCGATGC
1 AAAAAGATTGAAG-CACAACGGCGAATCTTACTTCCCTGGCGATGC
* * * * ***
23517877 AATGGAATAGATTCAAGCTACAACAGTGAATCTTGCTTCCCCAAC-ATTGC
1 AA---AA-AGATTGAAGC-ACAACGGCGAATCTTACTTCCCTGGCGA-TGC
*
23517927 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGC
1 AAAAAGATTGAAG-CACAACGGCGAATCTTACTTCCCTGGCGATGC
23517973 A
1 A
23517974 TCCCTGACGG
Statistics
Matches: 74, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
46 34 0.46
47 3 0.04
49 4 0.05
50 33 0.45
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (45 bp):
AAAAAGATTGAAGCACAACGGCGAATCTTACTTCCCTGGCGATGC
Found at i:23517954 original size:46 final size:46
Alignment explanation
Indices: 23517831--23517963 Score: 133
Period size: 50 Copynumber: 2.8 Consensus size: 46
23517821 GGTTGCAATT
* ***
23517831 AAAAAGATTGAAGTCACAACGGCGAATCTTACTTCCCTGGCGATGC
1 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCCAACGATGC
* * * * *
23517877 AATGGAATAGATTCAAGCTACAACAGTGAATCTTGCTTCCCCAAC-ATTGC
1 AA---AA-AGATTGAAGCCACAACGGCGAATCTTACTTCCCCAACGA-TGC
23517927 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
1 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
23517964 TGGCGGTGCA
Statistics
Matches: 68, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
46 30 0.44
47 2 0.03
49 3 0.04
50 33 0.49
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (46 bp):
AAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCCAACGATGC
Found at i:23518070 original size:50 final size:50
Alignment explanation
Indices: 23517995--23518642 Score: 452
Period size: 50 Copynumber: 13.0 Consensus size: 50
23517985 GCAGTGGAAC
* * * * *
23517995 AGATTAAAGCTACAACGGCAAATCTTGTTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * * * * *** *
23518045 AGATTGAAGCCACAACGGCGAATCTTACTTTCCTGGCAGTGCAGTGGGAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * *
23518095 AGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * * * * ** *** *
23518145 AAATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTATAGTGGGAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * *
23518195 AGATTGAAGCTACAACGGCAAATCTTGCTTCTCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * * ** * * * * ** *
23518245 ATATTGAAGCCACAATGGTAAATCTTACTTCCCTGGCAGTACAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * *
23518295 AGATTGAAGCTACAACGACGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * * * ** * * ** *
23518345 AGATTGAAGCCACAACGGCGAGTCTTACTTCCCTGGCGGTACAATGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * * *
23518395 AGATTAAAGGTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * * * * * * ** ** *
23518445 AGATTGAAGCCACAATGGCAAATCTTACCTCCTTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * * *
23518495 AGATTGAAGTTACAACAGCGAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * * * * * ** *
23518545 AGATTGAAGCTACAACAGTGAATTTTACTTCCCTGGC-TGTGTAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACAT-TGCAGTTAAAA
* ** * * *
23518595 AGATTGAATCTACAATAGCAAATCTTACTTCCCCGACATTGCAGTTAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAA
23518643 TTAGACTAAA
Statistics
Matches: 434, Mismatches: 162, Indels: 4
0.72 0.27 0.01
Matches are distributed among these distances:
49 1 0.00
50 432 1.00
51 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAA
Found at i:23518156 original size:100 final size:100
Alignment explanation
Indices: 23517974--23518642 Score: 888
Period size: 100 Copynumber: 6.7 Consensus size: 100
23517964 TGGCGGTGCA
* * * * *
23517974 TCCCTGACGGTGCAGTGGAACAGATTAAAGCTACAACGGCAAATCTTGTTTCCCCGACATTGCAA
1 TCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAA
23518039 TTAAAAAGATTGAAGCCACAACGGCGAATCTTACT
66 TTAAAAAGATTGAAGCCACAACGGCGAATCTTACT
* * *
23518074 TTCCTGGCAGTGCAGTGGGACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAA
1 TCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAA
*
23518139 TTAAAAAAATTGAAGCCACAACGGCGAATCTTACT
66 TTAAAAAGATTGAAGCCACAACGGCGAATCTTACT
** * * * *
23518174 TCCCTGGCAGTATAGTGGGACAGATTGAAGCTACAACGGCAAATCTTGCTTCTCTGACATTGCAA
1 TCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAA
* * **
23518239 TTAAAAATATTGAAGCCACAATGGTAAATCTTACT
66 TTAAAAAGATTGAAGCCACAACGGCGAATCTTACT
* *
23518274 TCCCTGGCAGTACAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCCCCGACATTGCAA
1 TCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAA
*
23518339 TTAAAAAGATTGAAGCCACAACGGCGAGTCTTACT
66 TTAAAAAGATTGAAGCCACAACGGCGAATCTTACT
* * * * * * *
23518374 TCCCTGGCGGTACAATGGAACAGATTAAAGGTACAACAGCGAATCTTGCTTCCCCGACATTGCAG
1 TCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAA
* * *
23518439 TTAAAAAGATTGAAGCCACAATGGCAAATCTTACC
66 TTAAAAAGATTGAAGCCACAACGGCGAATCTTACT
* * * * * *
23518474 TCCTTGGCGGTGCAGTGGAACAGATTGAAGTTACAACAGCGAATCTTGCTTCCCCGACATTACAG
1 TCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAA
* * * *
23518539 TTAAAAAGATTGAAGCTACAACAGTGAATTTTACT
66 TTAAAAAGATTGAAGCCACAACGGCGAATCTTACT
* * * ** * * *
23518574 TCCCTGGCTGTGTAGTGGAACAGATTGAATCTACAATAGCAAATCTTACTTCCCCGACATTGCAG
1 TCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAA
23518639 TTAA
66 TTAA
23518643 TTAGACTAAA
Statistics
Matches: 505, Mismatches: 64, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 505 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (100 bp):
TCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAA
TTAAAAAGATTGAAGCCACAACGGCGAATCTTACT
Found at i:23518803 original size:45 final size:44
Alignment explanation
Indices: 23518750--23519093 Score: 300
Period size: 45 Copynumber: 7.7 Consensus size: 44
23518740 CAGATCATAT
* *
23518750 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGAAAA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAA
* * **
23518795 CAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
*** ** * * * *
23518839 GTGGATCTTATAGCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
1 CAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAA
* * * * * **
23518885 TAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
*
23518928 CAAGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
* * *
23518972 GCAAGTCTTATC-CTCCTGGACTTGCAGTGGGGCAGACTGAA-AATA
1 -CAAGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGAAGAA-A
* * * **
23519017 GCGAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
1 -CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
*
23519062 CTAA-TCCTATCTCCCTGAAGTTGCAGTGGAGC
1 C-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
23519094 GGATTAAAAC
Statistics
Matches: 239, Mismatches: 51, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
43 3 0.01
44 97 0.41
45 138 0.58
46 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (44 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
Found at i:23518913 original size:44 final size:43
Alignment explanation
Indices: 23518712--23519101 Score: 237
Period size: 45 Copynumber: 8.9 Consensus size: 43
23518702 TAAATTATCG
** * * * *
23518712 ATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCATA-TCA-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATA
* * * * * * *
23518753 GTCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGAAAACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAATA
* * * * ** *
23518797 AGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGTGG
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAAT-A
** * *
23518843 ATCTTATAGCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAATA
* * * *
23518887 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATA
* * * * *
23518930 AGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAA-TA
* * * * * **
23518975 AGTCTTATC-CTCCTGGACTTGCAGTGGGGCAGACTGAAAATAGCGA
1 A-TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAAAGTA-ATA
* * * *
23519021 GTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAATA
* *
23519065 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
23519102 ACGATGAATC
Statistics
Matches: 264, Mismatches: 73, Indels: 21
0.74 0.20 0.06
Matches are distributed among these distances:
41 27 0.10
43 4 0.02
44 105 0.40
45 122 0.46
46 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATA
Found at i:23518958 original size:178 final size:178
Alignment explanation
Indices: 23518750--23519101 Score: 535
Period size: 178 Copynumber: 2.0 Consensus size: 178
23518740 CAGATCATAT
* *
23518750 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGAAAACAAGTCTTATCCCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGAAAACAAGTCTTATCCCCCTGAAC
* * * * *
23518815 TTGCAGTGGGGCAGACTGAAGATGGTG-GATCTTATAGCCTTGAAGTTGCAGTGGAGCAGATTAA
66 TTGCAGTGGGGCAGACTGAAAATAGCGAG-TCTTATAGCCCTGAAGTTGCAGTGGAACAGATTAA
23518879 AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTA
130 AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTA
* * * * *
23518928 CAAGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCTCCTGGAC
1 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGAAAACAAGTCTTATCCCCCTGAAC
** *
23518993 TTGCAGTGGGGCAGACTGAAAATAGCGAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAA
66 TTGCAGTGGGGCAGACTGAAAATAGCGAGTCTTATAGCCCTGAAGTTGCAGTGGAACAGATTAAA
* *
23519058 GCTACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
131 GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
23519102 ACGATGAATC
Statistics
Matches: 156, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
178 155 0.99
179 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (178 bp):
CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGAAAACAAGTCTTATCCCCCTGAAC
TTGCAGTGGGGCAGACTGAAAATAGCGAGTCTTATAGCCCTGAAGTTGCAGTGGAACAGATTAAA
GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTA
Found at i:23525504 original size:3 final size:3
Alignment explanation
Indices: 23525482--23525540 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
23525472 TAATAAATTG
* * * * *
23525482 TAT TAT AAT TGT TA- TAT TAT TAT TAG TAT TAT TAT TAA TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
23525529 TAT TAT CAT TAT
1 TAT TAT TAT TAT
23525541 ATTTTCATTT
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:23525651 original size:21 final size:22
Alignment explanation
Indices: 23525622--23525666 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
23525612 GTTATATGTG
23525622 TATACATACATACAT-TTTTTT
1 TATACATACATACATATTTTTT
* *
23525643 TATATATACGTACATATTTTTT
1 TATACATACATACATATTTTTT
23525665 TA
1 TA
23525667 ATTTTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.53
Consensus pattern (22 bp):
TATACATACATACATATTTTTT
Found at i:23538346 original size:99 final size:99
Alignment explanation
Indices: 23538236--23539944 Score: 2060
Period size: 99 Copynumber: 17.3 Consensus size: 99
23538226 GCAGATCGAA
* * *
23538236 GCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAAAGGCAAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
*
23538301 CTTGCTTCCCCGACATTGCAATTAAAAGATCGAG
66 CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
* * * ** *
23538335 GCCACAACGGTGAATCTTATTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACAACAACAAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* * * *
23538400 CTCGCTTCCCCGGCATTGTAATTAAAAGATTAAG
66 CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
* * * ** * *
23538434 GTCATAACGACGAATCTTACTTCCCTGGCAATGCAGTGGAATAGATTGAAGCTACAACGGTGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* * *
23538499 CTCGTTTCCCCGACATTGCAATTAAAAGATTAAG
66 CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
* * * * ** *
23538533 GTCACAACGGTGAATCTTATTTCCCTAGCGGTATAGTGGAACAAATTGAAGCTACAACGGCGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* * *
23538598 CTTACTTCCCCTACATTGCAATTAAAAGATCGAG
66 CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
* * * * * *
23538632 GCCATAACGGCGAATCTTATTTCCCTAGTGGTGCAGTAGAACAGATTGAAGCTACAACGGTGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* * **
23538697 CTTGCTTCCTCGGCATTGCAATTAAAAGATCAAG
66 CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
* * * * * *
23538731 GCCACAACAGCGAATCTTATTTCCCTGGCAGTGCAGTAGAATAGATTGAAGCTACAACGGTGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
** * *
23538796 CTCACTTCCTCGACATTGTAATTAAAAGATTGAG
66 CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
* ** * ** *
23538830 GCCACAACGGCGAATATTACTTTTCTGGTGGTGCAAAGGAACAGATTGAAACTACAACGGCGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
*
23538895 CTTGCTTCCCTGACATTGCAATTAAAAGATTGAG
66 CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
* * * *
23538929 GCCACAACGGCAAATCTTATTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTTAGAACGGCGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* * * *
23538994 CTTGCTTTCCCGACATTGCAATTGAAAGATCGAT
66 CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
** * * * *
23539028 GCCACAATAGCGAATCTTACTTCCCTGGCGCTGCAGTGGAACAAATTAAAGCTACAACGGTGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
*
23539093 CTTGCTTCCCCGACATTGCAATTAAAAGATCGAG
66 CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
* ** *
23539127 GCCACAACGGCAAATCTTACTTTTCTGGCGGTGCAGTGAAACAGATTGAAGCTACAACGGCGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
*
23539192 CTTGCTTCCTCGACATTGCAATTAAAAGATTGAG
66 CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
* * * * * *
23539226 GTCACAACGGTGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTAAAGCTACAACGGTGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* * *
23539291 CTTGTTTTCCCGACATTGCAATTAAAAAGATTGAA
66 CTTGCTTCCCCGACATTGCAATT-AAAAGATTGAG
* * * * * * *
23539326 GCGACAACAGCGAATCTTACTTCCCTGGCAGTGCAGTGGGACAGATTGAAGCTACAATGACAAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* * *
23539391 CTTACTTCCCCGACATTGC-ATTAAAAAAATTGAA
66 CTTGCTTCCCCGACATTGCAATT-AAAAGATTGAG
* * * * *
23539425 GCCACAACGACGAATCTTACTTCCCTAGCAGTGTAGTGGGACAGATTGAAGCTACAACGGCGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* * *
23539490 CTTGCTTCTCCGACATTGCAATTAAAAATATTGAA
66 CTTGCTTCCCCGACATTGCAATT-AAAAGATTGAG
* * * **
23539525 ACCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACAATAGCGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* *
23539590 CTTGCTTCCCCGACATTGCGATTAAAAGA-TCA-
66 CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
* * * * *
23539622 --AACGACGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* * * *
23539685 CTTGCTTCCCTGTCATTACAATTAAAAGATCGAG
66 CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
* * ** * *
23539719 GCCACAACGACAAATCTTACTTTTCTGGCGGTGCAATGGAACAGATTGAAGCTACAACGGTGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* *
23539784 CTTGCTTTCTCGACATTGCAATTAAAAGATTGAG
66 CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
* * * * * *
23539818 GCCTCAACGGCGAATCTTACTTTCCTGGTGGTGCAATGGAATAGATTAAAGCTACAACGGCGAAT
1 GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* *
23539883 CTTGCTTCCCTGACATTGCAATTAAATAGATTGAA
66 CTTGCTTCCCCGACATTGCAATTAAA-AGATTGAG
* *
23539918 GCTACAACAGCGAATCTTACTTCCCTG
1 GCCACAACGGCGAATCTTACTTCCCTG
23539945 ATGAATAGAT
Statistics
Matches: 1376, Mismatches: 227, Indels: 13
0.85 0.14 0.01
Matches are distributed among these distances:
95 81 0.06
96 1 0.00
98 2 0.00
99 1094 0.80
100 198 0.14
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (99 bp):
GCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
CTTGCTTCCCCGACATTGCAATTAAAAGATTGAG
Found at i:23541581 original size:3 final size:3
Alignment explanation
Indices: 23541571--23541619 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
23541561 AAAATAATAA
* * * *
23541571 ATT A-T ATT ATT ATT AGT ATT ATT ATT AAT ATT ATT GTT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23541618 AT
1 AT
23541620 ATTTTCATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:23542563 original size:112 final size:112
Alignment explanation
Indices: 23542366--23542604 Score: 478
Period size: 112 Copynumber: 2.1 Consensus size: 112
23542356 AAAAGATCAA
23542366 GTCCTAACTTACTGGGCCTAATCCCTTTCTTTTAAAATCCGAGATAGCTAAATATCTTTTAAATA
1 GTCCTAACTTACTGGGCCTAATCCCTTTCTTTTAAAATCCGAGATAGCTAAATATCTTTTAAATA
23542431 AGCAAATTTTTAGCATCCATTCGCGTATCGGGAATTCGAGACATTGT
66 AGCAAATTTTTAGCATCCATTCGCGTATCGGGAATTCGAGACATTGT
23542478 GTCCTAACTTACTGGGCCTAATCCCTTTCTTTTAAAATCCGAGATAGCTAAATATCTTTTAAATA
1 GTCCTAACTTACTGGGCCTAATCCCTTTCTTTTAAAATCCGAGATAGCTAAATATCTTTTAAATA
23542543 AGCAAATTTTTAGCATCCATTCGCGTATCGGGAATTCGAGACATTGT
66 AGCAAATTTTTAGCATCCATTCGCGTATCGGGAATTCGAGACATTGT
23542590 GTCCTAACTTACTGG
1 GTCCTAACTTACTGG
23542605 ATATGATTCT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 127 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (112 bp):
GTCCTAACTTACTGGGCCTAATCCCTTTCTTTTAAAATCCGAGATAGCTAAATATCTTTTAAATA
AGCAAATTTTTAGCATCCATTCGCGTATCGGGAATTCGAGACATTGT
Found at i:23544768 original size:33 final size:33
Alignment explanation
Indices: 23544731--23544793 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
23544721 CCACCGTTAG
**
23544731 GTTTTTAGTATTATATGATAGAAAAATAACTTT
1 GTTTTTAGTATTATACAATAGAAAAATAACTTT
*
23544764 GTTTTTAGTATTATACAATAGTAAAATAAC
1 GTTTTTAGTATTATACAATAGAAAAATAAC
23544794 AAAGTTGATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (33 bp):
GTTTTTAGTATTATACAATAGAAAAATAACTTT
Found at i:23558553 original size:4 final size:4
Alignment explanation
Indices: 23558544--23558598 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
23558534 TGCAAAAAGA
23558544 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23558592 TATG TAT
1 TATG TAT
23558599 ACAACAAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:23561095 original size:26 final size:24
Alignment explanation
Indices: 23561065--23561112 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
23561055 ACTTTAAAAA
23561065 ATAATAAAATATTAAATTTATATTTT
1 ATAATAAAAT-TTAAATTT-TATTTT
* *
23561091 ATAATTAAATTTATATTTTATT
1 ATAATAAAATTTAAATTTTATT
23561113 ATTTAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 7 0.35
26 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATAATAAAATTTAAATTTTATTTT
Found at i:23561099 original size:19 final size:20
Alignment explanation
Indices: 23561075--23561121 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
23561065 ATAATAAAAT
23561075 ATTAAATTTATATTTTA-TA
1 ATTAAATTTATATTTTATTA
23561094 ATTAAATTTATATTTTATTA
1 ATTAAATTTATATTTTATTA
*
23561114 TTTAAATT
1 ATTAAATT
23561122 GAATTTCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTAAATTTATATTTTATTA
Found at i:23562626 original size:125 final size:124
Alignment explanation
Indices: 23562302--23562638 Score: 514
Period size: 125 Copynumber: 2.7 Consensus size: 124
23562292 TTAGGGTTTT
* *** *
23562302 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTT-TTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* * * *
23562367 ATGATGTTATTTAAGAAGAATTTGTGAAATCGCGCCCTAGTGGATGCGCTTTTGCTACAG
65 ATGATGTTATTTGAGAAGAATTTGAGAAATCGCGCCATAGTGGACGCGCTTTTGCTACAG
* *
23562427 TAGGTAATGGAAGAAATAA-TTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCA
1 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
* *
23562491 TGATGTTATTTGAGAAGAATTTGAGAAAATTGCGCCATCGTGGACGCGCTTTTGCTACAG
66 TGATGTTATTTGAGAAGAATTTGAG-AAATCGCGCCATAGTGGACGCGCTTTTGCTACAG
*
23562551 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGA
1 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
*
23562616 TGATGCTATTTGAGAAGAATTTG
66 TGATGTTATTTGAGAAGAATTTG
23562639 TAAATGCGCT
Statistics
Matches: 193, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
123 61 0.32
124 50 0.26
125 82 0.42
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (124 bp):
TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
TGATGTTATTTGAGAAGAATTTGAGAAATCGCGCCATAGTGGACGCGCTTTTGCTACAG
Found at i:23567582 original size:5 final size:5
Alignment explanation
Indices: 23567559--23567629 Score: 69
Period size: 5 Copynumber: 14.4 Consensus size: 5
23567549 TCTATTTTCC
*
23567559 TTTAT TGTTAT TATTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTTAC TTTAT
1 TTTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
*
23567610 GTTCA- TTTA- TTTA- TTTAT TT
1 -TTTAT TTTAT TTTAT TTTAT TT
23567630 ATATATCCAT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
4 15 0.26
5 29 0.51
6 13 0.23
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:23567585 original size:4 final size:4
Alignment explanation
Indices: 23567576--23567673 Score: 72
Period size: 4 Copynumber: 22.8 Consensus size: 4
23567566 TTATTATTAT
23567576 TTTA TTTA TTTTA TTTTA TTTTA TTTTA CTTTA TGTTCA TTTA TTTA TTTA
1 TTTA TTTA -TTTA -TTTA -TTTA -TTTA -TTTA T-TT-A TTTA TTTA TTTA
* ** * *
23567627 TTTA TATA TCCA TTTT TTTA TGT- TTTA GTTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTT
23567674 GTTGTTGTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
3 2 0.03
4 44 0.56
5 31 0.39
6 2 0.03
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:23569383 original size:19 final size:20
Alignment explanation
Indices: 23569343--23569386 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
23569333 GTCTCTTTAG
* *
23569343 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
23569362 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
23569381 GCATTA
1 GCATTA
23569387 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:23569915 original size:26 final size:26
Alignment explanation
Indices: 23569868--23569917 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
23569858 TATTTTTATT
*
23569868 ATTCTATTCTTTCATCCAAATCATTC
1 ATTCTATTCATTCATCCAAATCATTC
*
23569894 ATTC-ATTCATTCATTCATAATCAT
1 ATTCTATTCATTCATCCA-AATCAT
23569918 ACTGTGCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTCTATTCATTCATCCAAATCATTC
Found at i:23570644 original size:9 final size:9
Alignment explanation
Indices: 23570630--23570681 Score: 72
Period size: 8 Copynumber: 5.8 Consensus size: 9
23570620 GAGTTTAGAC
23570630 TCAAAAAAA
1 TCAAAAAAA
23570639 TC-AAAAAA
1 TCAAAAAAA
23570647 TCAAAAAAAAA
1 TC--AAAAAAA
23570658 TCAAAAAAA
1 TCAAAAAAA
23570667 TC-AAAAAA
1 TCAAAAAAA
23570675 TCAAAAA
1 TCAAAAA
23570682 TCAAATAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
8 16 0.41
9 15 0.38
11 8 0.21
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (9 bp):
TCAAAAAAA
Found at i:23570656 original size:19 final size:19
Alignment explanation
Indices: 23570632--23570698 Score: 88
Period size: 19 Copynumber: 3.6 Consensus size: 19
23570622 GTTTAGACTC
23570632 AAAAAAATCAAAAAATCAA
1 AAAAAAATCAAAAAATCAA
23570651 AAAAAAATCAAAAAAATC--
1 AAAAAAATC-AAAAAATCAA
23570669 -AAAAAATC-AAAAATCAA
1 AAAAAAATCAAAAAATCAA
23570686 ATAAAAAATCAAA
1 A-AAAAAATCAAA
23570699 GTCAAAATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.17
17 8 0.19
19 17 0.40
20 10 0.24
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (19 bp):
AAAAAAATCAAAAAATCAA
Found at i:23570662 original size:28 final size:29
Alignment explanation
Indices: 23570630--23570698 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 29
23570620 GAGTTTAGAC
23570630 TCAAAAAAATCAAAAAATCAAAAA-AAAA
1 TCAAAAAAATCAAAAAATCAAAAATAAAA
*
23570658 TCAAAAAAATCAAAAAATCAAAAATCAAA
1 TCAAAAAAATCAAAAAATCAAAAATAAAA
23570687 T--AAAAAATCAAA
1 TCAAAAAAATCAAA
23570699 GTCAAAATAG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 11 0.28
28 24 0.62
29 4 0.10
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.13
Consensus pattern (29 bp):
TCAAAAAAATCAAAAAATCAAAAATAAAA
Found at i:23574257 original size:100 final size:100
Alignment explanation
Indices: 23573169--23574209 Score: 1821
Period size: 100 Copynumber: 10.4 Consensus size: 100
23573159 GAAACCATAG
* *
23573169 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGAACTTACTTTCCTAGCATTGCAGTGGAACAG
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
23573234 ATTGAAGCTACAATAGCGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * *
23573269 ATTGCAATTAAGAAGATTAAAGCTACAACAGCAGATCTTACTTTCCTAGTGTTGCAGTGGAACAG
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
23573334 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * *
23573369 ATTGCAATTAAGAAGATTAAAGCTACAACAGCAGATCTTACTTTCCTAGTGTTGCAGTGGAACAG
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
23573434 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* *
23573469 ATTGCAATTAAGAAGATTAAAGCTACAACAGCAGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
23573534 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
*
23573569 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
23573634 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
23573669 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
23573734 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
*
23573769 ATTGCAATTAAGAAGATTGAAGCTACAATAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
23573834 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
23573869 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
23573934 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* *
23573969 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGGTCTTACTTTTCTAGCGTTGCAGTGGAACAG
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
23574034 ATTGAAGCTACAACAGCGGATCTTCCTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * * * *
23574069 ATTACATTTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCGTTGCAGTGGAATAG
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
23574134 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * * * *
23574169 ATTGCATTTAAAAATATGGAAGCTACAACAGCGAATCTTAC
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTAC
23574210 GCCCTAAGCG
Statistics
Matches: 910, Mismatches: 31, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 910 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (100 bp):
ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
Found at i:23574329 original size:25 final size:25
Alignment explanation
Indices: 23574283--23574332 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
23574273 CAGTTGAAAA
* * *
23574283 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
23574308 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
23574333 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:23574410 original size:125 final size:125
Alignment explanation
Indices: 23574188--23574661 Score: 806
Period size: 125 Copynumber: 3.8 Consensus size: 125
23574178 AAAAATATGG
* *
23574188 AAGCTACAACAGCGAATCTTACGCCCTAAGCGATGTAGTGGAATAGATTAAAGCCAAATTGGTGA
1 AAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGA
*
23574253 ATCTTGTTTCTCCGACATTGCAGTTGAAAAGATTAAAGCCACATCGGTGAATCTTGATTA
66 ATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTA
*
23574313 AAGCTACAACAGCGAATCTTACGCCCCAAGTGATGCAGTGGAATAGATTAAAGCCAAATTGGTGA
1 AAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGA
*
23574378 ATTTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTA
66 ATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTA
* *
23574438 AAGCTACAACAGCGAATCTTACGACCCAAGCGGTGCAGTGGAATAGATTAAAGCCAAATTGGTGA
1 AAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGA
*
23574503 ATCTTGTTTCTCCGACATTGCAGTTAAAAATATTAAAGCCACATCGGTGAATCTTGATTA
66 ATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTA
* *
23574563 AAGCTACAACAGTGAATCTTACGCCCTAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGA
1 AAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGA
*** *
23574628 ATCTCACTTC-CCTGACATTGCAGTTAAACAGATT
66 ATCTTGTTTCTCC-GACATTGCAGTTAAAAAGATT
23574662 GAAGAAGCCA
Statistics
Matches: 329, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
124 2 0.01
125 327 0.99
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (125 bp):
AAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGA
ATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTA
Found at i:23574454 original size:25 final size:25
Alignment explanation
Indices: 23574408--23574457 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
23574398 CAGTTAAAAA
* * *
23574408 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
23574433 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
23574458 ACGACCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:23574562 original size:25 final size:25
Alignment explanation
Indices: 23574534--23574582 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
23574524 AGTTAAAAAT
* *
23574534 ATTAAAGCCACATCGGTGAATCTTG
1 ATTAAAGCCACAACAGTGAATCTTG
*
23574559 ATTAAAGCTACAACAGTGAATCTT
1 ATTAAAGCCACAACAGTGAATCTT
23574583 ACGCCCTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (25 bp):
ATTAAAGCCACAACAGTGAATCTTG
Found at i:23574774 original size:41 final size:43
Alignment explanation
Indices: 23574670--23574872 Score: 178
Period size: 44 Copynumber: 4.7 Consensus size: 43
23574660 TTGAAGAAGC
** * *
23574670 CAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAACCA
1 CAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAGAATCA
* * *
23574713 CAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT-GTATC-
1 CAA-TCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAGAATCA
* * *
23574755 CAATCTTATCTCCCTGAAGTTCCAGTGGAGCAGATTGAAGAATCA
1 CAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATT--AGAATCA
* * * *
23574800 CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGA
1 C-AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAGAATCA
* **
23574844 TGAATCCTATAC-CTTTGAAGTTGCAGTAG
1 -CAATCCTAT-CTCCCTGAAGTTGCAGTAG
23574873 GTCGGATTAA
Statistics
Matches: 132, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
41 30 0.23
42 3 0.02
43 5 0.04
44 60 0.45
45 2 0.02
46 32 0.24
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
CAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAGAATCA
Found at i:23574828 original size:46 final size:43
Alignment explanation
Indices: 23574656--23574838 Score: 183
Period size: 44 Copynumber: 4.2 Consensus size: 43
23574646 TGCAGTTAAA
*
23574656 CAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTGCAGTAGAG
1 CAGATT-AAGAATCCAATCCTATCTCCCTGAAGTTGCAGTAGAG
** * * *
23574700 TGGATTAA-AACCACAAGTCTTATCTCTCTGAAGTTGCAGTAGAG
1 CAGATTAAGAATC-CAA-TCCTATCTCCCTGAAGTTGCAGTAGAG
* * * *
23574744 CAGATT--GTATCCAATCTTATCTCCCTGAAGTTCCAGTGGAG
1 CAGATTAAGAATCCAATCCTATCTCCCTGAAGTTGCAGTAGAG
*
23574785 CAGATTGAAGAATCACAAATCCTATCTCCCTGAAGTTGCAGTGGAG
1 CAGATT-AAGAATC-C-AATCCTATCTCCCTGAAGTTGCAGTAGAG
*
23574831 CGGATTAA
1 CAGATTAA
23574839 AATGATGAAT
Statistics
Matches: 115, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
41 30 0.26
42 6 0.05
43 7 0.06
44 37 0.32
45 3 0.03
46 32 0.28
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
CAGATTAAGAATCCAATCCTATCTCCCTGAAGTTGCAGTAGAG
Found at i:23576585 original size:48 final size:48
Alignment explanation
Indices: 23576533--23576686 Score: 145
Period size: 48 Copynumber: 3.2 Consensus size: 48
23576523 ATGCCCGTAC
23576533 ATATATATTTTTATTATATAGTATTTTCACATACCTGCATATATGTTA
1 ATATATATTTTTATTATATAGTATTTTCACATACCTGCATATATGTTA
* * * * *** * *
23576581 ATATATATATTTCATTTTCATA--AATAT-ACATATAGGTAT-TATGCCCGTA
1 ATATATAT-TTTTATTAT-ATAGTATTTTCACATACCTGCATATATG---TTA
23576630 CATATATATTTTTATTATATAGTATTTTCACATACCTGCATATATGTTA
1 -ATATATATTTTTATTATATAGTATTTTCACATACCTGCATATATGTTA
23576679 ATATATAT
1 ATATATAT
23576687 ATTTCATTTT
Statistics
Matches: 78, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
46 4 0.05
47 8 0.10
48 22 0.28
49 18 0.23
50 14 0.18
51 8 0.10
52 4 0.05
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.47
Consensus pattern (48 bp):
ATATATATTTTTATTATATAGTATTTTCACATACCTGCATATATGTTA
Found at i:23576614 original size:98 final size:98
Alignment explanation
Indices: 23576502--23576712 Score: 422
Period size: 98 Copynumber: 2.2 Consensus size: 98
23576492 TATTTCACAT
23576502 ATAAATATACATATAGGTATTATGCCCGTACATATATATTTTTATTATATAGTATTTTCACATAC
1 ATAAATATACATATAGGTATTATGCCCGTACATATATATTTTTATTATATAGTATTTTCACATAC
23576567 CTGCATATATGTTAATATATATATTTCATTTTC
66 CTGCATATATGTTAATATATATATTTCATTTTC
23576600 ATAAATATACATATAGGTATTATGCCCGTACATATATATTTTTATTATATAGTATTTTCACATAC
1 ATAAATATACATATAGGTATTATGCCCGTACATATATATTTTTATTATATAGTATTTTCACATAC
23576665 CTGCATATATGTTAATATATATATTTCATTTTC
66 CTGCATATATGTTAATATATATATTTCATTTTC
23576698 ATAAATATACATATA
1 ATAAATATACATATA
23576713 TATACTTACA
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 113 1.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (98 bp):
ATAAATATACATATAGGTATTATGCCCGTACATATATATTTTTATTATATAGTATTTTCACATAC
CTGCATATATGTTAATATATATATTTCATTTTC
Found at i:23576687 original size:50 final size:50
Alignment explanation
Indices: 23576533--23576690 Score: 148
Period size: 50 Copynumber: 3.2 Consensus size: 50
23576523 ATGCCCGTAC
23576533 ATATATATTTTTATTATATAGTATTTTCACATACCTGCATATATGTTAAT
1 ATATATATTTTTATTATATAGTATTTTCACATACCTGCATATATGTTAAT
* * * * *** * * *
23576583 ATATATA-TTTCATTTTCATA--AATAT-ACATATAGGTAT-TATGCCCGT-AC
1 ATATATATTTTTATTAT-ATAGTATTTTCACATACCTGCATATATG---TTAAT
23576631 ATATATATTTTTATTATATAGTATTTTCACATACCTGCATATATGTTAAT
1 ATATATATTTTTATTATATAGTATTTTCACATACCTGCATATATGTTAAT
23576681 ATATATATTT
1 ATATATATTT
23576691 CATTTTCATA
Statistics
Matches: 78, Mismatches: 20, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
46 4 0.05
47 8 0.10
48 14 0.18
49 16 0.21
50 24 0.31
51 8 0.10
52 4 0.05
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (50 bp):
ATATATATTTTTATTATATAGTATTTTCACATACCTGCATATATGTTAAT
Found at i:23576882 original size:5 final size:5
Alignment explanation
Indices: 23576859--23576929 Score: 69
Period size: 5 Copynumber: 14.4 Consensus size: 5
23576849 TCTATTTTCC
*
23576859 TTTAT TGTTAT TATTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTTAC TTTAT
1 TTTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
*
23576910 GTTCA- TTTA- TTTA- TTTAT TT
1 -TTTAT TTTAT TTTAT TTTAT TT
23576930 ATATATCCAT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
4 15 0.26
5 29 0.51
6 13 0.23
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:23576885 original size:4 final size:4
Alignment explanation
Indices: 23576876--23576973 Score: 72
Period size: 4 Copynumber: 22.8 Consensus size: 4
23576866 TTATTATTAT
23576876 TTTA TTTA TTTTA TTTTA TTTTA TTTTA CTTTA TGTTCA TTTA TTTA TTTA
1 TTTA TTTA -TTTA -TTTA -TTTA -TTTA -TTTA T-TT-A TTTA TTTA TTTA
* ** * *
23576927 TTTA TATA TCCA TTTT TTTA TGT- TTTA GTTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTT
23576974 GTTGTTGTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
3 2 0.03
4 44 0.56
5 31 0.39
6 2 0.03
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:23577311 original size:107 final size:109
Alignment explanation
Indices: 23577112--23577317 Score: 281
Period size: 107 Copynumber: 1.9 Consensus size: 109
23577102 AAATTTTTCT
* * *
23577112 AAATGAGGCAATATTTAGCTTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA-T
** *
23577177 TTTCTCGTTCAACCAAATTGCTTAATATTCTTTTCAAAAATTACA
65 TTTCTCGTTCAACCAAATTGCCAAATATCCTTTTCAAAAATTACA
* * * * *
23577222 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA-T
1 AAATAAGGCAATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
23577285 TTCTCGTTTAACCAAATTGCCAAATATCCTTTT
66 TTCTCGTTCAACCAAATTGCCAAATATCCTTTT
23577318 GAATTTTAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
107 30 0.36
109 25 0.30
110 29 0.35
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (109 bp):
AAATAAGGCAATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTCTCGTTCAACCAAATTGCCAAATATCCTTTTCAAAAATTACA
Found at i:23577907 original size:3 final size:3
Alignment explanation
Indices: 23577899--23577945 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
23577889 TGAATATAGA
* **
23577899 AAT AAT AAT AAT GAT AAT AAAT AAT -AT AAT AAT AAT GGT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
23577944 AA
1 AA
23577946 AAAATGAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23577912 original size:21 final size:19
Alignment explanation
Indices: 23577888--23577933 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
23577878 AACTATGCAT
23577888 ATGAATATAGAAATAATAATA
1 ATGAATA-AGAAATAAT-ATA
*
23577909 ATG-ATAATAAATAATATA
1 ATGAATAAGAAATAATATA
23577927 AT-AATAA
1 ATGAATAA
23577934 TGGTAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 9 0.39
19 8 0.35
20 3 0.13
21 3 0.13
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (19 bp):
ATGAATAAGAAATAATATA
Found at i:23577917 original size:12 final size:12
Alignment explanation
Indices: 23577900--23577945 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
23577890 GAATATAGAA
23577900 ATAATAATAATG
1 ATAATAATAATG
23577912 ATAATAAATAAT-
1 ATAAT-AATAATG
23577924 ATAATAATAATG
1 ATAATAATAATG
*
23577936 GTAATAATAA
1 ATAATAATAA
23577946 AAAATGAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 6 0.19
12 19 0.61
13 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (12 bp):
ATAATAATAATG
Found at i:23578511 original size:13 final size:15
Alignment explanation
Indices: 23578493--23578521 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23578483 ATTTTAAGCG
23578493 AAAAAATAA-ATATA
1 AAAAAATAATATATA
23578507 AAAAAATAATATATA
1 AAAAAATAATATATA
23578522 TGTATAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAAATAATATATA
Found at i:23579698 original size:89 final size:89
Alignment explanation
Indices: 23579555--23579979 Score: 656
Period size: 89 Copynumber: 4.8 Consensus size: 89
23579545 ATCTGCTCCA
* * *
23579555 CCACCAGTATGGGGAA-ACAAGATCTGTTGTCTTTGATCTACTTCACGCCAGTACATGAAGACAA
1 CCACCAGTAT-GGGAAGACAAGATCTGTTATATTTGATCTACTTCACGCCGGTACATGAAGACAA
** * *
23579619 GATTTGTTTTCTTCGATCTACTTCG
65 GATCCGCTTTCTTCGATCTCCTTCG
*
23579644 CCACCAGTATGGGGAGACAAGATCTGTTATATTTGATCTACTTCACGCCGGTACATGAAGACAAG
1 CCACCAGTATGGGAAGACAAGATCTGTTATATTTGATCTACTTCACGCCGGTACATGAAGACAAG
*
23579709 ATCCGCTTTTTTCGATCTCCTTCG
66 ATCCGCTTTCTTCGATCTCCTTCG
23579733 CCACCAGTATGGGAAGACAAGATCTGTTATATTTGATCTACTTCACGCCGGTACATGAAGACAAG
1 CCACCAGTATGGGAAGACAAGATCTGTTATATTTGATCTACTTCACGCCGGTACATGAAGACAAG
*
23579798 ATCCGCTTTCTTCGATCTCCTTTG
66 ATCCGCTTTCTTCGATCTCCTTCG
*
23579822 CCACCAGTATGGGAAGACAAGATCTGTTATATTTGATCTACTTCACACCGGTACATGAAGACAAG
1 CCACCAGTATGGGAAGACAAGATCTGTTATATTTGATCTACTTCACGCCGGTACATGAAGACAAG
*
23579887 ATACGCTTTCTTCGATCTCCTTCG
66 ATCCGCTTTCTTCGATCTCCTTCG
* * * **
23579911 CCACCAGTATGGGAAGACAAGATCTGCTT-TCTTTCGATCTATTTCACTCCAATACATGAAGACA
1 CCACCAGTATGGGAAGACAAGATCTG-TTATATTT-GATCTACTTCACGCCGGTACATGAAGACA
23579975 AGATC
64 AGATC
23579980 TGTCATCTTT
Statistics
Matches: 312, Mismatches: 21, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
88 4 0.01
89 277 0.89
90 31 0.10
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (89 bp):
CCACCAGTATGGGAAGACAAGATCTGTTATATTTGATCTACTTCACGCCGGTACATGAAGACAAG
ATCCGCTTTCTTCGATCTCCTTCG
Found at i:23579972 original size:45 final size:44
Alignment explanation
Indices: 23579571--23579982 Score: 313
Period size: 45 Copynumber: 9.2 Consensus size: 44
23579561 GTATGGGGAA
*
23579571 ACAAGATCTGTTGTCTTT-GATCTACTTCACGCCAGTACATGAAG
1 ACAAGATCTGTT-TCTTTCGATCTACTTCACACCAGTACATGAAG
* * *** *
23579615 ACAAGATTTGTTT-TCTTCGATCTACTTCGCCACCAGTATGGGGAG
1 ACAAGATCTGTTTCT-TTCGATCTACTTC-ACACCAGTACATGAAG
* * *
23579660 ACAAGATCTGTTATATTT-GATCTACTTCACGCCGGTACATGAAG
1 ACAAGATCTGTT-TCTTTCGATCTACTTCACACCAGTACATGAAG
* * * ***
23579704 ACAAGATCCGCTTT-TTTCGATCTCCTTCGCCACCAGTATGGGAAG
1 ACAAGATCTG-TTTCTTTCGATCTACTTC-ACACCAGTACATGAAG
* * *
23579749 ACAAGATCTGTTATATTT-GATCTACTTCACGCCGGTACATGAAG
1 ACAAGATCTGTT-TCTTTCGATCTACTTCACACCAGTACATGAAG
* * ***
23579793 ACAAGATCCGCTTTC-TTCGATCTCCTTTGC-CACCAGTATGGGAAG
1 ACAAGATCTG-TTTCTTTCGATCTAC-TT-CACACCAGTACATGAAG
* *
23579838 ACAAGATCTGTTATATTT-GATCTACTTCACACCGGTACATGAAG
1 ACAAGATCTGTT-TCTTTCGATCTACTTCACACCAGTACATGAAG
* * ***
23579882 ACAAGATAC-GCTTTC-TTCGATCTCCTTCGCCACCAGTATGGGAAG
1 ACAAGAT-CTG-TTTCTTTCGATCTACTTC-ACACCAGTACATGAAG
* * *
23579927 ACAAGATCTGCTTTCTTTCGATCTATTTCACTCCAATACATGAAG
1 ACAAGATCTG-TTTCTTTCGATCTACTTCACACCAGTACATGAAG
23579972 ACAAGATCTGT
1 ACAAGATCTGT
23579983 CATCTTTTCA
Statistics
Matches: 284, Mismatches: 61, Indels: 46
0.73 0.16 0.12
Matches are distributed among these distances:
42 1 0.00
43 11 0.04
44 112 0.39
45 139 0.49
46 20 0.07
47 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (44 bp):
ACAAGATCTGTTTCTTTCGATCTACTTCACACCAGTACATGAAG
Found at i:23592727 original size:12 final size:12
Alignment explanation
Indices: 23592707--23592764 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
23592697 GCATGTGAAT
*
23592707 ATAGAAATAATA
1 ATAGTAATAATA
*
23592719 ATAGTAATAATG
1 ATAGTAATAATA
*
23592731 ATAAT-A-AATA
1 ATAGTAATAATA
*
23592741 ATA-TGATAATA
1 ATAGTAATAATA
*
23592752 ATGGTAATAATA
1 ATAGTAATAATA
23592764 A
1 A
23592765 AAAACGAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 1 0.03
10 7 0.19
11 7 0.19
12 22 0.59
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (12 bp):
ATAGTAATAATA
Found at i:23592764 original size:15 final size:15
Alignment explanation
Indices: 23592712--23592764 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
23592702 TGAATATAGA
23592712 AATAATAATAGTAAT
1 AATAATAATAGTAAT
* *
23592727 AATGATAATAAATAAT
1 AATAATAAT-AGTAAT
*
23592743 ATGATAATAATGGTAAT
1 A--ATAATAATAGTAAT
23592760 AATAA
1 AATAA
23592765 AAAACGAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 12 0.40
16 6 0.20
17 5 0.17
18 7 0.23
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.32
Consensus pattern (15 bp):
AATAATAATAGTAAT
Found at i:23594927 original size:12 final size:12
Alignment explanation
Indices: 23594910--23594935 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23594900 TTTACGGTTT
23594910 AAAAAAATTTTA
1 AAAAAAATTTTA
23594922 AAAAAAATTTTA
1 AAAAAAATTTTA
23594934 AA
1 AA
23594936 TTATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAAAATTTTA
Found at i:23601779 original size:8 final size:8
Alignment explanation
Indices: 23601762--23601800 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
23601752 AAAGTTCATA
*
23601762 AAATTAAT
1 AAATTTAT
23601770 AAATTTAT
1 AAATTTAT
23601778 AAAAATTTAT
1 --AAATTTAT
23601788 AAATTTAT
1 AAATTTAT
23601796 AAATT
1 AAATT
23601801 GATTTAACCG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 20 0.71
10 8 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAATTTAT
Found at i:23601784 original size:18 final size:18
Alignment explanation
Indices: 23601740--23601798 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
23601730 TTATAATTAA
*
23601740 ATAAATAATTAA-AAAGTTC
1 ATAAA-AATTAATAAA-TTT
23601759 AT-AAAATTAATAAATTT
1 ATAAAAATTAATAAATTT
*
23601776 ATAAAAATTTATAAATTT
1 ATAAAAATTAATAAATTT
23601794 ATAAA
1 ATAAA
23601799 TTGATTTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 10 0.28
18 24 0.67
19 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
ATAAAAATTAATAAATTT
Found at i:23606712 original size:11 final size:11
Alignment explanation
Indices: 23606698--23606805 Score: 51
Period size: 11 Copynumber: 9.6 Consensus size: 11
23606688 AATTTATTAA
23606698 AAAATTATTTT
1 AAAATTATTTT
*
23606709 AAAAATATTTT
1 AAAATTATTTT
** *
23606720 AAAATTAAAAAAATA
1 AAAATT----ATTTT
23606735 AAAATATATTTT
1 AAAAT-TATTTT
*
23606747 AAAAATATTTT
1 AAAATTATTTT
**
23606758 AAAATTA--AA
1 AAAATTATTTT
**
23606767 AAAATT-TTAA
1 AAAATTATTTT
*
23606777 AAAAGTATTTT
1 AAAATTATTTT
*
23606788 AAAAGTATTTT
1 AAAATTATTTT
23606799 AAAATTA
1 AAAATTA
23606806 AAAAAATAAA
Statistics
Matches: 73, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
9 6 0.08
10 7 0.10
11 46 0.63
12 6 0.08
15 7 0.10
16 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:23606786 original size:30 final size:30
Alignment explanation
Indices: 23606728--23606791 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 30
23606718 TTAAAATTAA
23606728 AAAAATAAAAATATATTTTAAAAATATTTT
1 AAAAATAAAAATATATTTTAAAAATATTTT
*
23606758 AAAATTAAAAA-A-ATTTTAAAAAAGTATTTT
1 AAAAATAAAAATATATTTT-AAAAA-TATTTT
23606788 AAAA
1 AAAA
23606792 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 5 0.16
29 6 0.19
30 20 0.65
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAAATAAAAATATATTTTAAAAATATTTT
Found at i:23607654 original size:22 final size:22
Alignment explanation
Indices: 23607600--23607695 Score: 102
Period size: 22 Copynumber: 4.3 Consensus size: 22
23607590 TACACCACAC
*
23607600 CAGTAGGCACCGAAGTGCTTAAA
1 CAGTAGGCACCGAAGTG-TTGAA
* *
23607623 CAATAGGCACCAAAGTGTTGAA
1 CAGTAGGCACCGAAGTGTTGAA
* *
23607645 TAGTAGGCACCGAAGTGTTGGA
1 CAGTAGGCACCGAAGTGTTGAA
* * *
23607667 CAGTGGGCACCGAAATGCTGAA
1 CAGTAGGCACCGAAGTGTTGAA
*
23607689 CAATAGG
1 CAGTAGG
23607696 TATCGTAGTG
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
22 44 0.75
23 15 0.25
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (22 bp):
CAGTAGGCACCGAAGTGTTGAA
Found at i:23607737 original size:20 final size:21
Alignment explanation
Indices: 23607702--23607749 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
23607692 TAGGTATCGT
*
23607702 AGTGCAAGTCAGTGGCACCGA
1 AGTGCAAATCAGTGGCACCGA
23607723 AGTGCAAAT-AGTGGCACCGA
1 AGTGCAAATCAGTGGCACCGA
23607743 AGTGCAA
1 AGTGCAA
23607750 TCCCTTACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.33, C:0.21, G:0.31, T:0.15
Consensus pattern (21 bp):
AGTGCAAATCAGTGGCACCGA
Found at i:23607924 original size:7 final size:7
Alignment explanation
Indices: 23607914--23607947 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
23607904 CACAATCCAC
23607914 AATTCAT
1 AATTCAT
23607921 AATTCAT
1 AATTCAT
23607928 AATTCAT
1 AATTCAT
23607935 AATTCAT
1 AATTCAT
23607942 AATTCA
1 AATTCA
23607948 AACAAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
AATTCAT
Found at i:23622597 original size:1 final size:1
Alignment explanation
Indices: 23622591--23622619 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
23622581 NNNNNNNNNN
23622591 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23622620 GGTTCAGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:23623534 original size:19 final size:19
Alignment explanation
Indices: 23623510--23623548 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
23623500 TTTGAATTAC
23623510 TCATGAA-AAATATAAGTAT
1 TCATGAAGAAATATAA-TAT
23623529 TCATGAAGAAATATAATAT
1 TCATGAAGAAATATAATAT
23623548 T
1 T
23623549 TTTTAATGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (19 bp):
TCATGAAGAAATATAATAT
Found at i:23623638 original size:15 final size:15
Alignment explanation
Indices: 23623614--23623651 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
23623604 TAAGTGAAGC
23623614 AGAAAAAATTTGAAA-
1 AGAAAAAA-TTGAAAT
*
23623629 AGAAACAATTGAAAT
1 AGAAAAAATTGAAAT
23623644 AGAAAAAA
1 AGAAAAAA
23623652 AAACAAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.68, C:0.03, G:0.13, T:0.16
Consensus pattern (15 bp):
AGAAAAAATTGAAAT
Found at i:23628424 original size:301 final size:301
Alignment explanation
Indices: 23627882--23628447 Score: 1105
Period size: 301 Copynumber: 1.9 Consensus size: 301
23627872 TTTACCTTTT
**
23627882 GAAGAACAACTTACGGATATGAGTACATTGTTTTCAGAAGCCCGAAGGCAGAACTTAAGCTCATG
1 GAAGAACAACTTACGGATATGAGTACATCATTTTCAGAAGCCCGAAGGCAGAACTTAAGCTCATG
23627947 AGAGCTAAATAGATAGTAAACACGAAAGTCCGCAACAAATGCTGAACCTCGGTTTACTTGGGTAA
66 AGAGCTAAATAGATAGTAAACACGAAAGTCCGCAACAAATGCTGAACCTCGGTTTACTTGGGTAA
23628012 TTTACTGTCAGTTCATCCTTTGTCACAAAACGATTGTACTCAATCCCGCGTTCAATCCAAACTGG
131 TTTACTGTCAGTTCATCCTTTGTCACAAAACGATTGTACTCAATCCCGCGTTCAATCCAAACTGG
23628077 GTATTAAATTCGATAATATATTTCCAATAATAATTCAATTCCATGTTTTCTATTACCCTTATTAT
196 GTATTAAATTCGATAATATATTTCCAATAATAATTCAATTCCATGTTTTCTATTACCCTTATTAT
23628142 TTTTTCAACCACATAAGTCTTTTACCATTTCTTTCTGTATC
261 TTTTTCAACCACATAAGTCTTTTACCATTTCTTTCTGTATC
*
23628183 GAAGAACGACTTACGGATATGAGTACATCATTTTCAGAAGCCCGAAGGCAGAACTTAAGCTCATG
1 GAAGAACAACTTACGGATATGAGTACATCATTTTCAGAAGCCCGAAGGCAGAACTTAAGCTCATG
23628248 AGAGCTAAATAGATAGTAAACACGAAAGTCCGCAACAAATGCTGAACCTCGGTTTACTTGGGTAA
66 AGAGCTAAATAGATAGTAAACACGAAAGTCCGCAACAAATGCTGAACCTCGGTTTACTTGGGTAA
23628313 TTTACTGTCAGTTCATCCTTTGTCACAAAACGATTGTACTCAATCCCGCGTTCAATCCAAACTGG
131 TTTACTGTCAGTTCATCCTTTGTCACAAAACGATTGTACTCAATCCCGCGTTCAATCCAAACTGG
23628378 GTATTAAATTCGATAATATATTTCCAATAATAATTCAATTCCATGTTTTCTATTACCCTTATTAT
196 GTATTAAATTCGATAATATATTTCCAATAATAATTCAATTCCATGTTTTCTATTACCCTTATTAT
23628443 TTTTT
261 TTTTT
23628448 ATATTTATCC
Statistics
Matches: 262, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
301 262 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (301 bp):
GAAGAACAACTTACGGATATGAGTACATCATTTTCAGAAGCCCGAAGGCAGAACTTAAGCTCATG
AGAGCTAAATAGATAGTAAACACGAAAGTCCGCAACAAATGCTGAACCTCGGTTTACTTGGGTAA
TTTACTGTCAGTTCATCCTTTGTCACAAAACGATTGTACTCAATCCCGCGTTCAATCCAAACTGG
GTATTAAATTCGATAATATATTTCCAATAATAATTCAATTCCATGTTTTCTATTACCCTTATTAT
TTTTTCAACCACATAAGTCTTTTACCATTTCTTTCTGTATC
Found at i:23631875 original size:17 final size:17
Alignment explanation
Indices: 23631855--23631891 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
23631845 ATTAAATTCG
*
23631855 ATAATATATTTCCAACA
1 ATAATATAATTCCAACA
*
23631872 ATAATTTAATTCCAACA
1 ATAATATAATTCCAACA
23631889 ATA
1 ATA
23631892 GAACATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATATAATTCCAACA
Found at i:23639971 original size:3 final size:3
Alignment explanation
Indices: 23639963--23640027 Score: 69
Period size: 3 Copynumber: 21.3 Consensus size: 3
23639953 TGTTTTTTAA
* *
23639963 ATT ATT ATT ATT ATT ATTT ATT ATT ATC ATT ATT ATT A-T ATT AAAT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* *
23640009 ATT ATC ATT ATT ACT ATT A
1 ATT ATT ATT ATT ATT ATT A
23640028 CTATCTCTAC
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
2 2 0.04
3 44 0.86
4 5 0.10
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:23640089 original size:25 final size:26
Alignment explanation
Indices: 23640058--23640126 Score: 79
Period size: 25 Copynumber: 2.6 Consensus size: 26
23640048 ATGCATTGAC
*
23640058 TTTATATAATATATATATGCA-TTTT
1 TTTATATAATATATATACGCATTTTT
*
23640083 TTTATAT-ATAGTATACACGCATTGTTTT
1 TTTATATAATA-TATATACGCA-T-TTTT
23640111 TTTATATAATATATAT
1 TTTATATAATATATAT
23640127 GTATATGCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
24 3 0.08
25 15 0.42
28 15 0.42
29 3 0.08
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (26 bp):
TTTATATAATATATATACGCATTTTT
Found at i:23640331 original size:26 final size:23
Alignment explanation
Indices: 23640302--23640358 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
23640292 ATTCTTCATA
*
23640302 ATTTTTTTACAAATATATATATATAC
1 ATTTTTTTA-AAAT-TAT-TATAAAC
*
23640328 ATTTTTTT-GAATTATTATAAAC
1 ATTTTTTTAAAATTATTATAAAC
23640350 ATTTTTTTA
1 ATTTTTTTA
23640359 TTATTCTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 14 0.50
23 3 0.11
24 3 0.11
26 8 0.29
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (23 bp):
ATTTTTTTAAAATTATTATAAAC
Found at i:23640368 original size:22 final size:21
Alignment explanation
Indices: 23640321--23640363 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
23640311 CAAATATATA
*
23640321 TATATACATTTTTTTGAATTAT
1 TATAAACATTTTTTT-AATTAT
23640343 TATAAACATTTTTTT-ATTAT
1 TATAAACATTTTTTTAATTAT
23640363 T
1 T
23640364 CTATATATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
22 14 0.70
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (21 bp):
TATAAACATTTTTTTAATTAT
Found at i:23642915 original size:28 final size:30
Alignment explanation
Indices: 23642857--23642924 Score: 75
Period size: 33 Copynumber: 2.2 Consensus size: 30
23642847 ATATAATATG
23642857 AAATACAATAATAAAATACGTTTGAACAAAAAA
1 AAATACAATAATAAAATAC---TGAACAAAAAA
* *
23642890 AAATACTATAATAAAATAC-GAAAAAAAAGA
1 AAATACAATAATAAAATACTGAACAAAAA-A
23642920 AAATA
1 AAATA
23642925 ATGTAAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 8 0.25
30 6 0.19
33 18 0.56
ACGTcount: A:0.68, C:0.07, G:0.06, T:0.19
Consensus pattern (30 bp):
AAATACAATAATAAAATACTGAACAAAAAA
Found at i:23649835 original size:52 final size:51
Alignment explanation
Indices: 23649773--23649872 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 51
23649763 AAAGGATGCA
23649773 AGCACCTATGAATTGGTTGATTTATTTAGGCTGTGGTGTCATTCTCTCTGCG
1 AGCACCTATGAATTGGTTGATTTATTTAGGCTGT-GTGTCATTCTCTCTGCG
*
23649825 AGCACCTATGAATTGGTTGATTTATTTAGGCTGTGTGTCGTTCTCTCT
1 AGCACCTATGAATTGGTTGATTTATTTAGGCTGTGTGTCATTCTCTCT
23649873 CTCACTCTCT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 13 0.28
52 34 0.72
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.42
Consensus pattern (51 bp):
AGCACCTATGAATTGGTTGATTTATTTAGGCTGTGTGTCATTCTCTCTGCG
Found at i:23652278 original size:15 final size:15
Alignment explanation
Indices: 23652258--23652288 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23652248 AATTTGGGTT
23652258 CACGACTCAAGTATG
1 CACGACTCAAGTATG
23652273 CACGACTCAAGTATG
1 CACGACTCAAGTATG
23652288 C
1 C
23652289 CAAGGCTGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.19
Consensus pattern (15 bp):
CACGACTCAAGTATG
Found at i:23655844 original size:202 final size:202
Alignment explanation
Indices: 23655498--23656105 Score: 1162
Period size: 202 Copynumber: 3.0 Consensus size: 202
23655488 CATTACCTTT
* *
23655498 TTTAGGTTTAATTATGATTTCCATCCCTCTGCTTTACAAAAACTAATATGTTAGCCCCTCTACTT
1 TTTAGGTTTAATTATGAATTCCATCCCTCTACTTTACAAAAACTAATATGTTAGCCCCTCTACTT
*
23655563 TAATTTGTCAAAATTTGATCCTTATACTTTACGGAAATGTCCAATTAAAGAATATTGCTAAACCT
66 TAATTTGTCAAAATTTGATCCTTATGCTTTACGGAAATGTCCAATTAAAGAATATTGCTAAACCT
23655628 TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATATGCAAATAATTAGCAAAAA
131 TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATATGCAAATAATTAGCAAAAA
23655693 TCGGAAA
196 TCGGAAA
*
23655700 TTTAGGTTTAATTATGAATTCCGTCCCTCTACTTTACAAAAACTAATATGTTAGCCCCTCTACTT
1 TTTAGGTTTAATTATGAATTCCATCCCTCTACTTTACAAAAACTAATATGTTAGCCCCTCTACTT
23655765 TAATTTGTCAAAATTTGATCCTTATGCTTTACGGAAATGTCCAATTAAAGAATATTGCTAAACCT
66 TAATTTGTCAAAATTTGATCCTTATGCTTTACGGAAATGTCCAATTAAAGAATATTGCTAAACCT
23655830 TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATATGCAAATAATTAGCAAAAA
131 TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATATGCAAATAATTAGCAAAAA
*
23655895 TTGGAAA
196 TCGGAAA
23655902 TTTAGGTTTAATTATGAATTCCATCCCTCTACTTTACAAAAACTAATATGTTAGCCCCTCTACTT
1 TTTAGGTTTAATTATGAATTCCATCCCTCTACTTTACAAAAACTAATATGTTAGCCCCTCTACTT
23655967 TAATTTGTCAAAATTTGATCCTTATGCTTTACGGAAATGTCCAATTAAAGAATATTGCTAAACCT
66 TAATTTGTCAAAATTTGATCCTTATGCTTTACGGAAATGTCCAATTAAAGAATATTGCTAAACCT
*
23656032 TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATATGTAAATAATTAGCAAAAA
131 TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATATGCAAATAATTAGCAAAAA
23656097 TCGGAAA
196 TCGGAAA
23656104 TT
1 TT
23656106 CAACAACTTA
Statistics
Matches: 398, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
202 398 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (202 bp):
TTTAGGTTTAATTATGAATTCCATCCCTCTACTTTACAAAAACTAATATGTTAGCCCCTCTACTT
TAATTTGTCAAAATTTGATCCTTATGCTTTACGGAAATGTCCAATTAAAGAATATTGCTAAACCT
TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATATGCAAATAATTAGCAAAAA
TCGGAAA
Found at i:23662465 original size:12 final size:12
Alignment explanation
Indices: 23662450--23662481 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
23662440 CCATTAAATT
23662450 ACATTTTCCATC
1 ACATTTTCCATC
23662462 ACATTTTCCATC
1 ACATTTTCCATC
23662474 ACATTTTC
1 ACATTTTC
23662482 ATACTAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (12 bp):
ACATTTTCCATC
Found at i:23668660 original size:29 final size:29
Alignment explanation
Indices: 23668618--23668679 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
23668608 ATACTCGTTG
*
23668618 AGAAGGCTAAGTACGGATTCTAAGCCTTA
1 AGAAGGCTAAGTACGGATTCTAAGCCTCA
23668647 AGAAGGCTAAGTACGGATTCTAAGCCTCA
1 AGAAGGCTAAGTACGGATTCTAAGCCTCA
23668676 AGAA
1 AGAA
23668680 CCCTTTTTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (29 bp):
AGAAGGCTAAGTACGGATTCTAAGCCTCA
Found at i:23669118 original size:18 final size:18
Alignment explanation
Indices: 23669095--23669132 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23669085 ACCAACTTTT
23669095 CCTTGTGGCGCACATTGG
1 CCTTGTGGCGCACATTGG
23669113 CCTTGTGGCGCACATTGG
1 CCTTGTGGCGCACATTGG
23669131 CC
1 CC
23669133 CATTTTATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.32, G:0.32, T:0.26
Consensus pattern (18 bp):
CCTTGTGGCGCACATTGG
Found at i:23674911 original size:27 final size:27
Alignment explanation
Indices: 23674881--23674933 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
23674871 AATGTAAAGT
23674881 GTATGTTTTAATCATATACTTGAATTG
1 GTATGTTTTAATCATATACTTGAATTG
*
23674908 GTATGTTTTAATGATATACTTGAATT
1 GTATGTTTTAATCATATACTTGAATT
23674934 ATGAGATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (27 bp):
GTATGTTTTAATCATATACTTGAATTG
Found at i:23676169 original size:214 final size:216
Alignment explanation
Indices: 23675781--23676173 Score: 637
Period size: 214 Copynumber: 1.8 Consensus size: 216
23675771 ATTCACTCAA
* * *
23675781 CATCACATTACATCTTTAACTCAATGCATTTCGATTTTGTATACTAGTCTTTCAAATATTGTGGT
1 CATCACATTACATCTTTAACTCAATGCACTCCAATTTTGTATACTAGTCTTTCAAATATTGTGGT
* *
23675846 TGGCAATGCCTTGGTAAAAAAAGATTTGTCAAATTATCACTAGAATGAATTTGTTGAACTTCTAT
66 TGACAATACCTTGGT-AAAAAAGATTTGTCAAATTATCACTAGAATGAATTTGTTGAACTTCTAT
* *
23675911 ATCGCCTTTCTTCTCAAAATCATGAGTGAAGAATAATTTTGGTGAAATATTGATTAAAGGAAAAA
130 ATCGCCTTTCTTCTCAAAATCATAAGTGAAAAATAATTTTGGTGAAATATTGATTAAAGGAAAAA
23675976 AGTATAACATGTTTTAGACTCT
195 AGTATAACATGTTTTAGACTCT
* * *
23675998 CATCACATTACATCTTTAAGTCAATGCACTCCAATTTTGTATACTAGTCTTTCGAATGTTGTGGT
1 CATCACATTACATCTTTAACTCAATGCACTCCAATTTTGTATACTAGTCTTTCAAATATTGTGGT
*
23676063 TGACAATACCTTGGT-AAAAATATTTGT-AAATTATCACTAGAATGAATTTGTTGAACTTCTATA
66 TGACAATACCTTGGTAAAAAAGATTTGTCAAATTATCACTAGAATGAATTTGTTGAACTTCTATA
* * *
23676126 TTGTCTTTCTTCTCGAAATCATAAGTGAAAAATAATTTTGGTGAAATA
131 TCGCCTTTCTTCTCAAAATCATAAGTGAAAAATAATTTTGGTGAAATA
23676174 AGTTTCTTCT
Statistics
Matches: 162, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
214 79 0.49
215 11 0.07
217 72 0.44
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (216 bp):
CATCACATTACATCTTTAACTCAATGCACTCCAATTTTGTATACTAGTCTTTCAAATATTGTGGT
TGACAATACCTTGGTAAAAAAGATTTGTCAAATTATCACTAGAATGAATTTGTTGAACTTCTATA
TCGCCTTTCTTCTCAAAATCATAAGTGAAAAATAATTTTGGTGAAATATTGATTAAAGGAAAAAA
GTATAACATGTTTTAGACTCT
Found at i:23676612 original size:95 final size:95
Alignment explanation
Indices: 23676449--23676639 Score: 339
Period size: 95 Copynumber: 2.0 Consensus size: 95
23676439 AAGAATTAAA
23676449 TCTTTCTAATAAGCTTACAACAATTAACATGACTCAAATCGGTTACTTTTCATTGCACATCTATT
1 TCTTTCTAATAAGCTTACAACAATTAACATGACTCAAATCGGTTACTTTTCATTGCACATCTATT
23676514 AGTATCTTAGCCTTGTTAAATAAGGATGTG
66 AGTATCTTAGCCTTGTTAAATAAGGATGTG
* * *
23676544 TCTTTCTAATAAGCTTACAACAATTAACATGACTC-GAGCTGGTTACTTTTCATTGCACATTTAT
1 TCTTTCTAATAAGCTTACAACAATTAACATGACTCAAATC-GGTTACTTTTCATTGCACATCTAT
23676608 TAGTATCTTAGCCTTGTTAAATAAGGATGTG
65 TAGTATCTTAGCCTTGTTAAATAAGGATGTG
23676639 T
1 T
23676640 TGGGTTTAGC
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
94 2 0.02
95 90 0.98
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (95 bp):
TCTTTCTAATAAGCTTACAACAATTAACATGACTCAAATCGGTTACTTTTCATTGCACATCTATT
AGTATCTTAGCCTTGTTAAATAAGGATGTG
Found at i:23681305 original size:6 final size:6
Alignment explanation
Indices: 23681294--23681318 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23681284 GAAAAGAAGA
23681294 GGCTGT GGCTGT GGCTGT GGCTGT G
1 GGCTGT GGCTGT GGCTGT GGCTGT G
23681319 AGAAGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGCTGT
Found at i:23682080 original size:23 final size:22
Alignment explanation
Indices: 23682054--23682097 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23682044 AGGCTTATTG
*
23682054 TAAACCCTAAATCATATTTAGGA
1 TAAACCC-AAATCATATCTAGGA
*
23682077 TAAACTCAAATCATATCTAGG
1 TAAACCCAAATCATATCTAGG
23682098 GTTATTCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (22 bp):
TAAACCCAAATCATATCTAGGA
Found at i:23685546 original size:8 final size:8
Alignment explanation
Indices: 23685523--23685556 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
23685513 TCCACCGATT
23685523 CACGACTC
1 CACGACTC
23685531 CACG--TC
1 CACGACTC
23685537 CACGACTC
1 CACGACTC
23685545 CACGACTC
1 CACGACTC
23685553 CACG
1 CACG
23685557 GTGCTTCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
8 18 0.75
ACGTcount: A:0.24, C:0.50, G:0.15, T:0.12
Consensus pattern (8 bp):
CACGACTC
Found at i:23685556 original size:22 final size:22
Alignment explanation
Indices: 23685505--23685556 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
23685495 ATCGGATCCA
* *
23685505 ACTCCACCTCCACCGATTCACG
1 ACTCCACGTCCACCGATCCACG
23685527 ACTCCACGTCCA-CGACTCCACG
1 ACTCCACGTCCACCGA-TCCACG
23685549 ACTCCACG
1 ACTCCACG
23685557 GTGCTTCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 3 0.11
22 24 0.89
ACGTcount: A:0.23, C:0.50, G:0.12, T:0.15
Consensus pattern (22 bp):
ACTCCACGTCCACCGATCCACG
Found at i:23686675 original size:13 final size:13
Alignment explanation
Indices: 23686652--23686743 Score: 114
Period size: 13 Copynumber: 7.0 Consensus size: 13
23686642 TGAGTTCGGT
23686652 TATATTGTTTTAA
1 TATATTGTTTTAA
23686665 TATACTT-TTTTAA
1 TATA-TTGTTTTAA
23686678 TATATTGTTTTAA
1 TATATTGTTTTAA
*
23686691 TATATTGTTATAA
1 TATATTGTTTTAA
* *
23686704 TATACTGTTATAA
1 TATATTGTTTTAA
*
23686717 TTGTATTGTTTTAA
1 -TATATTGTTTTAA
*
23686731 TATAATGTTTTAA
1 TATATTGTTTTAA
23686744 CTTTTAAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
12 2 0.03
13 55 0.80
14 12 0.17
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (13 bp):
TATATTGTTTTAA
Found at i:23686731 original size:27 final size:27
Alignment explanation
Indices: 23686672--23686775 Score: 86
Period size: 27 Copynumber: 3.9 Consensus size: 27
23686662 TAATATACTT
* *
23686672 TTTTAATATATTGTTTTAA-TATATTG
1 TTTTAATATACTGTTATAATTATATTG
* *
23686698 TTATAATATACTGTTATAATTGTATTG
1 TTTTAATATACTGTTATAATTATATTG
* * * **
23686725 TTTTAATATAATGTTTTAACTTTTA-AA
1 TTTTAATATACTGTTATAA-TTATATTG
* *
23686752 TTTTAGTATACTGTTATAAATATA
1 TTTTAATATACTGTTATAATTATA
23686776 CATTTAATTT
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
26 19 0.31
27 38 0.62
28 4 0.07
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.55
Consensus pattern (27 bp):
TTTTAATATACTGTTATAATTATATTG
Found at i:23688216 original size:19 final size:18
Alignment explanation
Indices: 23688184--23688236 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
23688174 TTATTGTTTT
*
23688184 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
23688202 TAAAATTGTAATATTAAAA
1 TAAAATT-TAATATTAAAA
*
23688221 TAATAAATT-ATATTAA
1 TAA-AATTTAATATTAA
23688237 TTATATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 14 0.45
19 14 0.45
20 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:23691423 original size:44 final size:45
Alignment explanation
Indices: 23691359--23691472 Score: 117
Period size: 45 Copynumber: 2.6 Consensus size: 45
23691349 TTTACCGTCA
* * * *
23691359 ATGGCTATGGACACACAACAAAATAC-CGCAGATGGAATCTGCCT
1 ATGGCTGTGGATACACAACAAAATACGCGCAGATGGAATCTACAT
* * *
23691403 TTGGCTGTGGATACACAACAAGA-CCGTCGCAGATGGAATCTACAT
1 ATGGCTGTGGATACACAACAAAATACG-CGCAGATGGAATCTACAT
*
23691448 ATGGTTGT-GAGTACACAACAAAATA
1 ATGGCTGTGGA-TACACAACAAAATA
23691473 AATGCAGATA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.38
45 33 0.60
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (45 bp):
ATGGCTGTGGATACACAACAAAATACGCGCAGATGGAATCTACAT
Found at i:23694881 original size:20 final size:20
Alignment explanation
Indices: 23694858--23694906 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
23694848 ATTTATTTAT
*
23694858 TAAAATAAAAATTTTATAAA
1 TAAAATAAAAATCTTATAAA
*
23694878 TAAAATAATAATCTTATAAA
1 TAAAATAAAAATCTTATAAA
23694898 TAAAA-AAAA
1 TAAAATAAAA
23694907 TTTAAGAGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAATAAAAATCTTATAAA
Found at i:23696954 original size:21 final size:18
Alignment explanation
Indices: 23696929--23696970 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
23696919 TATTAAATTA
23696929 AATTAAATTAATTAATTTTTC
1 AATTAAA-TAATT--TTTTTC
23696950 AATTAAATAATTTTTTTC
1 AATTAAATAATTTTTTTC
23696968 AAT
1 AAT
23696971 CCAATTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
20 5 0.24
21 7 0.33
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTAAATAATTTTTTTC
Found at i:23696955 original size:16 final size:16
Alignment explanation
Indices: 23696934--23696964 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23696924 AATTAAATTA
*
23696934 AATTAATTAATTTTTC
1 AATTAAATAATTTTTC
23696950 AATTAAATAATTTTT
1 AATTAAATAATTTTT
23696965 TTCAATCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTAAATAATTTTTC
Done.