Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 89 of 100
Found at i:17859853 original size:237 final size:235
Alignment explanation
Indices: 17859573--17860194 Score: 1000
Period size: 237 Copynumber: 2.6 Consensus size: 235
17859563 TTTTTAGAAT
17859573 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
1 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
* *
17859638 ACTTTTCCTCAAAAAGCCTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAAC-TTTC
66 ACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTC
17859702 CCTAAAAATATTTTTTGAAAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCC-CAAA
131 CCTAAAAATATTTTTTGAAAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC--A
* *
17859766 AAATCCTTTGTTTTTGAAAATTTATTTTTTTAAGAAAAATTGATAC
194 AAAGCC-CT-TTTTTGAAAATTTA--TTTTTAAGAAAAATTGATAC
* * * *
17859812 TTTCAACTTTT-CCCTAAAATA-TTTTTTGAAAATTTTGATTTTCAAAGAAAATTGATACTTTTA
1 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
*
17859875 ACTTTTCCTCAAAAATCTTTTTTTGGAAAATTTACTTTTAAGGAAAATTGATACTTTCAACTTTT
66 ACTTTTCCTCAAAAATCTTTTTTT-GAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTT
*
17859940 CCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCA
130 CCCTAAAAATA-TTTTTTGAAAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCA
* *
17860005 AAAGCCCTTTTTTGAAAATTTATTTTTAAGGAAAGTTGATAC
194 AAAGCCCTTTTTTGAAAATTTATTTTTAAGAAAAATTGATAC
17860047 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
1 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
* * *
17860112 ACTTTTCCTCAAAAATCTTTTTTTAAAAATTTATTTTTAAGAAAAATTGATACTTTCACCTTTTC
66 ACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTC
*
17860177 CCCAAAAATATTTTTTGA
131 CCTAAAAATATTTTTTGA
17860195 TTTTTATTTA
Statistics
Matches: 355, Mismatches: 22, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
235 36 0.10
236 55 0.15
237 138 0.39
238 45 0.13
239 31 0.09
240 49 0.14
241 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (235 bp):
TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
ACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTC
CCTAAAAATATTTTTTGAAAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAA
AGCCCTTTTTTGAAAATTTATTTTTAAGAAAAATTGATAC
Found at i:17860050 original size:118 final size:118
Alignment explanation
Indices: 17859573--17860192 Score: 973
Period size: 118 Copynumber: 5.2 Consensus size: 118
17859563 TTTTTAGAAT
17859573 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
1 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
17859638 ACTTTTCCTCAAAAAGCC-TTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
66 ACTTTTCCTCAAAAA-CCTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
* *
17859691 TTTCAAC-TTTCCCTAAAAATA-TTTTTTGAAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
1 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
*
17859754 ACTTTTCC-CAAAAAATCCTTTGTTTTTGAAAATTTATTTTTTTAAGAAAAATTGATAC
66 ACTTTTCCTC-AAAAA-CC-TT-TTTTTGAAAATTTA--TTTTTAAGGAAAATTGATAC
* * * *
17859812 TTTCAACTTTT-CCCTAAAATA-TTTTTTGAAAATTTTGATTTTCAAAGAAAATTGATACTTTTA
1 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
* *
17859875 ACTTTTCCTCAAAAATCTTTTTTTGGAAAATTTACTTTTAAGGAAAATTGATAC
66 ACTTTTCCTCAAAAACCTTTTTTT-GAAAATTTATTTTTAAGGAAAATTGATAC
*
17859929 TTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
1 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
* * *
17859994 ACTTTTCCTCAAAAGCCCTTTTTTGAAAATTTATTTTTAAGGAAAGTTGATAC
66 ACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
17860047 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
1 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
* * *
17860112 ACTTTTCCTCAAAAATCTTTTTTTAAAAATTTATTTTTAAGAAAAATTGATAC
66 ACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
*
17860165 TTTCACCTTTTCCCCAAAAATATTTTTT
1 TTTCAACTTTTCCCCAAAAATATTTTTT
17860193 GATTTTTATT
Statistics
Matches: 462, Mismatches: 29, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
115 1 0.00
116 56 0.12
117 42 0.09
118 186 0.40
119 85 0.18
120 1 0.00
121 87 0.19
122 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (118 bp):
TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
ACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
Found at i:17860216 original size:6 final size:6
Alignment explanation
Indices: 17860207--17860286 Score: 60
Period size: 6 Copynumber: 13.8 Consensus size: 6
17860197 TTTATTTAAA
* * * * *
17860207 AAAAAT -AAAAC AAAAAT AAAAGT GAAAAT AAAAA- AATAAAG AAAAGT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AAAAAT
* *
17860254 -AAAAT AAAAAT AAAAAT -AAGAT AAAGAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
17860287 ATATTAAATA
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
5 14 0.24
6 42 0.72
7 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:17860236 original size:23 final size:22
Alignment explanation
Indices: 17860208--17860287 Score: 90
Period size: 23 Copynumber: 3.5 Consensus size: 22
17860198 TTATTTAAAA
*
17860208 AAAATAAAACAAAAATAAAAGT
1 AAAATAAAAAAAAAATAAAAGT
*
17860230 GAAAATAAAAAAATAAAGAAAAGT
1 -AAAATAAAAAAA-AAATAAAAGT
*
17860254 AAAATAAAAATAAAAATAAGA-T
1 AAAATAAAAA-AAAAATAAAAGT
17860276 AAAGATAAAAAA
1 AAA-ATAAAAAA
17860288 TATTAAATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.10
23 34 0.68
24 11 0.22
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.14
Consensus pattern (22 bp):
AAAATAAAAAAAAAATAAAAGT
Found at i:17860239 original size:17 final size:17
Alignment explanation
Indices: 17860219--17860278 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
17860209 AAATAAAACA
*
17860219 AAAATAAAAGTGAAAAT
1 AAAATAAAAATGAAAAT
*
17860236 AAAA-AAATAAAGAAAAGT
1 AAAATAAA-AATGAAAA-T
*
17860254 AAAATAAAAATAAAAAT
1 AAAATAAAAATGAAAAT
*
17860271 AAGATAAA
1 AAAATAAA
17860279 GATAAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 3 0.09
17 18 0.51
18 11 0.31
19 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATGAAAAT
Found at i:17860309 original size:4 final size:4
Alignment explanation
Indices: 17860291--17860360 Score: 95
Period size: 4 Copynumber: 17.0 Consensus size: 4
17860281 TAAAAAATAT
*
17860291 TAAA TAAA TCTAA TAAA TAAA TAAA TAAA TAAA TAAA TAAAA TAAA TAAA
1 TAAA TAAA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA T-AAA TAAA TAAA
* *
17860341 CAAA TAAA CAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA
17860361 AAAAATCCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
4 51 0.88
5 7 0.12
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:17860334 original size:29 final size:29
Alignment explanation
Indices: 17860232--17860366 Score: 107
Period size: 29 Copynumber: 4.6 Consensus size: 29
17860222 ATAAAAGTGA
*
17860232 AAATAAA-AAAATAAAGAAAAGTAAAATAAA-
1 AAATAAATAAAATAAA-TAAA-T-AAATAAAT
* * *
17860262 AATAAAAATAAGATAAAGATAAA-AAAT-ATT
1 AA-ATAAATAAAAT-AA-ATAAATAAATAAAT
**
17860292 AAATAAATCTAATAAATAAATAAATAAAT
1 AAATAAATAAAATAAATAAATAAATAAAT
* *
17860321 AAATAAATAAAATAAATAAACAAATAAAC
1 AAATAAATAAAATAAATAAATAAATAAAT
*
17860350 AAATAAATAAAAAAAAT
1 AAATAAATAAAATAAAT
17860367 CCAAAAAAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
27 5 0.06
28 6 0.07
29 51 0.61
30 8 0.10
31 4 0.05
32 4 0.05
33 5 0.06
34 1 0.01
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (29 bp):
AAATAAATAAAATAAATAAATAAATAAAT
Found at i:17860537 original size:22 final size:22
Alignment explanation
Indices: 17860512--17860562 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
17860502 GGGTCAGGAA
17860512 GCGGGTCGACGCTCGGGACGGG
1 GCGGGTCGACGCTCGGGACGGG
*
17860534 GCGGGTCGACGCTCGGGTCGGG
1 GCGGGTCGACGCTCGGGACGGG
*
17860556 TCGGGTC
1 GCGGGTC
17860563 TCGGTAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.06, C:0.27, G:0.53, T:0.14
Consensus pattern (22 bp):
GCGGGTCGACGCTCGGGACGGG
Found at i:17861338 original size:18 final size:17
Alignment explanation
Indices: 17861315--17861373 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
17861305 ATATAATTAG
17861315 ATAAATAAAAATACAAAA
1 ATAAATAAAAATA-AAAA
17861333 ATAAATAAAATATAAAATA
1 ATAAATAAAA-ATAAAA-A
17861352 A-AAA-AAAGAAT-AAAA
1 ATAAATAAA-AATAAAAA
17861367 ATAAATA
1 ATAAATA
17861374 TATATTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.06
16 6 0.17
17 6 0.17
18 17 0.47
19 5 0.14
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (17 bp):
ATAAATAAAAATAAAAA
Found at i:17870257 original size:40 final size:39
Alignment explanation
Indices: 17870119--17870347 Score: 181
Period size: 40 Copynumber: 5.8 Consensus size: 39
17870109 TCTCTTAGAT
* * * **
17870119 TTTTGAATTTAAAGTTCATTGCCTCTGGTTAGAGGAGTGT
1 TTTTGAATTTAAAGTTTATTGCCTCTAGTTAGAAGAG-CC
* * *
17870159 TTTTGAATTTAAAGTTTATTGCTTCTAATTAAAAGAGCC
1 TTTTGAATTTAAAGTTTATTGCCTCTAGTTAGAAGAGCC
* * *
17870198 TTTTAACATTTAAAGTTTGTTGCCTCTAGTTAGAAGAACC
1 TTTTGA-ATTTAAAGTTTATTGCCTCTAGTTAGAAGAGCC
* * * * * *
17870238 TTTTGAATTTAATGTTTTGTTTCC-CTGGTCAGATGAGCC
1 TTTTGAATTTAAAG-TTTATTGCCTCTAGTTAGAAGAGCC
* * * * * * *
17870277 TTTTTAATTTAAAGTTCATTACTTCTAGGTAGAGGATCC
1 TTTTGAATTTAAAGTTTATTGCCTCTAGTTAGAAGAGCC
* *
17870316 TTTTGAATTTAAAGTTTTATTGTCTCTTGTTA
1 TTTTGAATTTAAAG-TTTATTGCCTCTAGTTA
17870348 AAGGAGTTTT
Statistics
Matches: 146, Mismatches: 39, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
38 5 0.03
39 58 0.40
40 83 0.57
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (39 bp):
TTTTGAATTTAAAGTTTATTGCCTCTAGTTAGAAGAGCC
Found at i:17870359 original size:78 final size:79
Alignment explanation
Indices: 17870118--17870364 Score: 225
Period size: 78 Copynumber: 3.1 Consensus size: 79
17870108 GTCTCTTAGA
**
17870118 TTTTTGAATTTAAAGTTCATTGCCTCT-GGTTAGAGGAGTGTTTTTGAATTTAAAG-TTTATTG-
1 TTTTT-AATTTAAAGTTCATTGCCTCTAGG-TAGAGGA-TCCTTTTGAATTTAAAGTTTTATTGT
*
17870180 CTTCTAATTAAAAGAGCC
63 C-TCTAGTTAAAAGAGCC
* ** * * * * * *
17870198 TTTTAACATTTAAAGTTTGTTGCCTCTAGTTAGAAGAACCTTTTGAATTTAATGTTTTGTT-TCC
1 TTTTTA-ATTTAAAGTTCATTGCCTCTAGGTAGAGGATCCTTTTGAATTTAAAGTTTTATTGTCT
* * * *
17870262 CTGGTCAGATGAGCC
65 CTAGTTAAAAGAGCC
* *
17870277 TTTTTAATTTAAAGTTCATTACTTCTAGGTAGAGGATCCTTTTGAATTTAAAGTTTTATTGTCTC
1 TTTTTAATTTAAAGTTCATTGCCTCTAGGTAGAGGATCCTTTTGAATTTAAAGTTTTATTGTCTC
* * *
17870342 TTGTTAAAGGAG-T
66 TAGTTAAAAGAGCC
17870355 TTTTTAATTT
1 TTTTTAATTT
17870365 TATGAGCCTC
Statistics
Matches: 130, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
78 55 0.42
79 40 0.31
80 34 0.26
81 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (79 bp):
TTTTTAATTTAAAGTTCATTGCCTCTAGGTAGAGGATCCTTTTGAATTTAAAGTTTTATTGTCTC
TAGTTAAAAGAGCC
Found at i:17870518 original size:40 final size:39
Alignment explanation
Indices: 17870469--17870891 Score: 309
Period size: 40 Copynumber: 10.6 Consensus size: 39
17870459 AGTTTTGTTA
*
17870469 CCTTTGGTTAGAGAAACCTTTTAACATTTAAAGTTCATTG
1 CCTTTGGTTAGAGAAGCCTTTTAA-ATTTAAAGTTCATTG
* **
17870509 CCTTTGGTTA-AAAGAGCCTTTTGCATTTAAAGTTCATTG
1 CCTTTGGTTAGAGA-AGCCTTTTAAATTTAAAGTTCATTG
** * **
17870548 CCTTTACTAAGATG-AGCCTTTTAACATTTAAAGTTTGTTG
1 CCTTTGGTTAGA-GAAGCCTTTTAA-ATTTAAAGTTCATTG
* * * * * * *
17870588 TCTCTAGTCAGAGAAGCCTTTTGAATTTAAAATTTCATTA
1 CCTTTGGTTAGAGAAGCCTTTTAAATTT-AAAGTTCATTG
* * * *
17870628 CCTCTGGTAAGAGAAGGCTTTTAACATTTAAAGTTCGTTG
1 CCTTTGGTTAGAGAAGCCTTTTAA-ATTTAAAGTTCATTG
* * * *
17870668 TCTCTGGTTCGA-AGAGCCTTTTAAATTTAAAGTTTCATTA
1 CCTTTGGTTAGAGA-AGCCTTTTAAATTTAAAG-TTCATTG
* * ** **
17870708 CCTCTAGTTAGAGGTGCCTTTTAAATTTAAAGTTTTGTTG
1 CCTTTGGTTAGAGAAGCCTTTTAAATTTAAAG-TTCATTG
* * *
17870748 CCTTTGGTCAGATG-AGCCTTTTGAATTTAAAGTT-TTGTAG
1 CCTTTGGTTAGA-GAAGCCTTTTAAATTTAAAGTTCAT-T-G
* * *
17870788 CCTCTGGTTAAAGGAGCCTTTTAATATTTAAAGTTTCATTG
1 CCTTTGGTTAGAGAAGCCTTTTAA-ATTTAAAG-TTCATTG
* * * *
17870829 CCTTTAGTTAGAGGAGCCTTTTGAATTCAAAGTTCATTG
1 CCTTTGGTTAGAGAAGCCTTTTAAATTTAAAGTTCATTG
17870868 CCTTTGGTTAGAGGAA-CCTTTTAA
1 CCTTTGGTTAGA-GAAGCCTTTTAA
17870892 CATCTAGAGT
Statistics
Matches: 303, Mismatches: 62, Indels: 37
0.75 0.15 0.09
Matches are distributed among these distances:
38 1 0.00
39 75 0.25
40 189 0.62
41 34 0.11
42 3 0.01
43 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (39 bp):
CCTTTGGTTAGAGAAGCCTTTTAAATTTAAAGTTCATTG
Found at i:17870686 original size:120 final size:122
Alignment explanation
Indices: 17870561--17870894 Score: 369
Period size: 120 Copynumber: 2.8 Consensus size: 122
17870551 TTACTAAGAT
* * * *
17870561 GAGCCTTTTAACATTTAAAGTTT-GTTGTCTCTAGTCAGAGAAGCCTTTTGAATTTAAAATTTCA
1 GAGCCTTTTAA-ATTTAAAGTTTCATTGCCTCTAGTTAGAGGAGCCTTTTGAATTTAAAATTTCA
* * * * * *
17870625 TTACCTCTGGTAAGA-GAAGGCTTTTAACATTTAAAG-TTCGTTGTCTCTGGTTCGAA-
65 TTGCCTTTGGTAAGAGGAAGCCTTTTAACATTTAAAGTTTCGTAGCCTCTGGTT-AAAG
* * * * **
17870681 GAGCCTTTTAAATTTAAAGTTTCATTACCTCTAGTTAGAGGTGCCTTTTAAATTTAAAGTTTTGT
1 GAGCCTTTTAAATTTAAAGTTTCATTGCCTCTAGTTAGAGGAGCCTTTTGAATTTAAAATTTCAT
* * * *
17870746 TGCCTTTGGTCAGATG-AGCCTTTTGA-ATTTAAAGTTTTGTAGCCTCTGGTTAAAG
66 TGCCTTTGGTAAGAGGAAGCCTTTTAACATTTAAAGTTTCGTAGCCTCTGGTTAAAG
* * *
17870801 GAGCCTTTTAATATTTAAAGTTTCATTGCCTTTAGTTAGAGGAGCCTTTTGAA-TTCAAAGTTCA
1 GAGCCTTTTAA-ATTTAAAGTTTCATTGCCTCTAGTTAGAGGAGCCTTTTGAATTTAAAATTTCA
*
17870865 TTGCCTTTGGTTAGAGGAA-CCTTTTAACAT
65 TTGCCTTTGGTAAGAGGAAGCCTTTTAACAT
17870895 CTAGAGTCTC
Statistics
Matches: 176, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
119 21 0.12
120 114 0.65
121 41 0.23
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (122 bp):
GAGCCTTTTAAATTTAAAGTTTCATTGCCTCTAGTTAGAGGAGCCTTTTGAATTTAAAATTTCAT
TGCCTTTGGTAAGAGGAAGCCTTTTAACATTTAAAGTTTCGTAGCCTCTGGTTAAAG
Found at i:17870926 original size:80 final size:81
Alignment explanation
Indices: 17870747--17870929 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 81
17870737 AAGTTTTGTT
* * * * *
17870747 GCCTTTGGTCAGATGAGCCTTTTGAATTTAAAGTTTTGTAGCCTCTGGTTAAAGGAGCCTTTTAA
1 GCCTTTAGTTAGATGAGCCTTTTGAATTCAAAGTTATGTAGCCTCTGGTTAAAGGAACCTTTTAA
* * * *
17870812 TATTTAAAGTTTCATT
66 CATCTAAAGTCTCATA
* * *
17870828 GCCTTTAGTTAGAGGAGCCTTTTGAATTCAAAGTTCAT-T-GCCTTTGGTTAGAGGAACCTTTTA
1 GCCTTTAGTTAGATGAGCCTTTTGAATTCAAAGTT-ATGTAGCCTCTGGTTAAAGGAACCTTTTA
*
17870891 ACATCTAGAGTCTCATA
65 ACATCTAAAGTCTCATA
*
17870908 G-CTTCTATTTAGATGAGCCTTT
1 GCCTT-TAGTTAGATGAGCCTTT
17870930 CAAATTTTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
79 3 0.04
80 49 0.58
81 32 0.38
82 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.40
Consensus pattern (81 bp):
GCCTTTAGTTAGATGAGCCTTTTGAATTCAAAGTTATGTAGCCTCTGGTTAAAGGAACCTTTTAA
CATCTAAAGTCTCATA
Found at i:17871113 original size:6 final size:6
Alignment explanation
Indices: 17871102--17871131 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
17871092 TTAACTTAAA
17871102 TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT
17871132 ATTACTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:17872077 original size:27 final size:28
Alignment explanation
Indices: 17872042--17872099 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
17872032 TTTTTTTTCT
* * *
17872042 TTTATTTTTTGTTTTGATTTTGATTTTA
1 TTTATTTTTGGTGTTGATTTTGATGTTA
*
17872070 TTTA-TTTTGGTGTTGATTTTTATGTTA
1 TTTATTTTTGGTGTTGATTTTGATGTTA
17872097 TTT
1 TTT
17872100 TTATATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.72
Consensus pattern (28 bp):
TTTATTTTTGGTGTTGATTTTGATGTTA
Found at i:17872214 original size:14 final size:13
Alignment explanation
Indices: 17872184--17872218 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
17872174 ATTCTTTTAG
*
17872184 AAATAAATAAATA
1 AAATAAAAAAATA
17872197 AAATAAAAAAACTA
1 AAATAAAAAAA-TA
17872211 AAATAAAA
1 AAATAAAA
17872219 CATGGACCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATAAAAAAATA
Found at i:17872381 original size:19 final size:20
Alignment explanation
Indices: 17872359--17872396 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
17872349 TGCTAAAAAA
*
17872359 TAAAATTAAAAAA-GATAAT
1 TAAAATAAAAAAATGATAAT
17872378 TAAAATAAAAAAATGATAA
1 TAAAATAAAAAAATGATAA
17872397 ATTGTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
TAAAATAAAAAAATGATAAT
Found at i:17872570 original size:13 final size:13
Alignment explanation
Indices: 17872552--17872576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17872542 TGTCAACAAT
17872552 ATAAATAAAAATA
1 ATAAATAAAAATA
17872565 ATAAATAAAAAT
1 ATAAATAAAAAT
17872577 GAAATAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAAATAAAAATA
Found at i:17872900 original size:50 final size:51
Alignment explanation
Indices: 17872846--17872961 Score: 117
Period size: 51 Copynumber: 2.3 Consensus size: 51
17872836 TCAAAAGGTT
* ** * *
17872846 GAGATGATCCTAAAAGTTGTTCAA-AATTTTTAAGATTTCATCGAAGAGTC
1 GAGATGATCCTAAAAGTTGTTCAAGAAATTTTAAGAACTCACCAAAGAGTC
* ** * *
17872896 GAGATAATTTTAAAATTTGTTCAAGAAATTTTGAGAACTCACCAAAGAGTC
1 GAGATGATCCTAAAAGTTGTTCAAGAAATTTTAAGAACTCACCAAAGAGTC
* *
17872947 AAGATGTTCCTAAAA
1 GAGATGATCCTAAAA
17872962 TTATTTTCTT
Statistics
Matches: 50, Mismatches: 15, Indels: 1
0.76 0.23 0.02
Matches are distributed among these distances:
50 20 0.40
51 30 0.60
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (51 bp):
GAGATGATCCTAAAAGTTGTTCAAGAAATTTTAAGAACTCACCAAAGAGTC
Found at i:17873089 original size:3 final size:3
Alignment explanation
Indices: 17873081--17873116 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
17873071 TATAGAATAC
17873081 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17873117 GTTAATTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17878573 original size:3 final size:3
Alignment explanation
Indices: 17878565--17878627 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
17878555 TTTTATAACA
17878565 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17878613 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
17878628 GAAAACAATA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17883737 original size:97 final size:97
Alignment explanation
Indices: 17883566--17883761 Score: 331
Period size: 97 Copynumber: 2.0 Consensus size: 97
17883556 AGAGAGATAG
* * *
17883566 AAGGAAATTGAAGGCTATGATGTATATGAGAGTGTTGATGCCATCGAACTTGGTCTAGTGCCTGA
1 AAGGAAATTGAAGGCTATGATGTATACGAGAGTGTTGATGCCATCGAACCTAGTCTAGTGCCTGA
17883631 TCTTGTCATT-TCATCAAAATTTAAAGCCCCAA
66 TCTTGTCATTCT-ATCAAAATTTAAAGCCCCAA
* *
17883663 AAGGCAATTGAAGGCTATGATGTATACGAGAGTGTTGATGCCATCGAACCTAGTCTAGTGCCTTA
1 AAGGAAATTGAAGGCTATGATGTATACGAGAGTGTTGATGCCATCGAACCTAGTCTAGTGCCTGA
17883728 TCTTGTCATTCTATCAAAATTTAAAGCCCCAA
66 TCTTGTCATTCTATCAAAATTTAAAGCCCCAA
17883760 AA
1 AA
17883762 TTTGAGAAGT
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
97 92 0.99
98 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (97 bp):
AAGGAAATTGAAGGCTATGATGTATACGAGAGTGTTGATGCCATCGAACCTAGTCTAGTGCCTGA
TCTTGTCATTCTATCAAAATTTAAAGCCCCAA
Found at i:17885013 original size:16 final size:17
Alignment explanation
Indices: 17884959--17885006 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
17884949 TATATCATAT
*
17884959 TATTGTTATTATTATAA
1 TATTATTATTATTATAA
17884976 TATTA-TATTATGGTATAA
1 TATTATTATTAT--TATAA
17884994 TATTATTATTATT
1 TATTATTATTATT
17885007 TATTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.22
17 5 0.19
18 10 0.37
19 6 0.22
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
TATTATTATTATTATAA
Found at i:17885535 original size:13 final size:13
Alignment explanation
Indices: 17885517--17885542 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17885507 CAGCAAATGA
17885517 TGAATTTTTTGGT
1 TGAATTTTTTGGT
17885530 TGAATTTTTTGGT
1 TGAATTTTTTGGT
17885543 GGGATGTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (13 bp):
TGAATTTTTTGGT
Found at i:17885947 original size:19 final size:18
Alignment explanation
Indices: 17885913--17885948 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
17885903 CATTTTCTCA
*
17885913 AGTTTTTATTTTATTTTC
1 AGTTTTTATTTAATTTTC
17885931 AGTTTTGTATTTAATTTT
1 AGTTTT-TATTTAATTTT
17885949 ACTGATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.19, C:0.03, G:0.08, T:0.69
Consensus pattern (18 bp):
AGTTTTTATTTAATTTTC
Found at i:17887638 original size:14 final size:14
Alignment explanation
Indices: 17887615--17887644 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17887605 AGCTCTAGAA
17887615 AAAGGAAATAGAGG
1 AAAGGAAATAGAGG
*
17887629 AAAGGTAATAGAGG
1 AAAGGAAATAGAGG
17887643 AA
1 AA
17887645 GATACCTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.33, T:0.10
Consensus pattern (14 bp):
AAAGGAAATAGAGG
Found at i:17889860 original size:23 final size:23
Alignment explanation
Indices: 17889830--17889875 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
17889820 TTACCTCGCA
17889830 AATACATTTTAGGCTTGTTTTAT
1 AATACATTTTAGGCTTGTTTTAT
*
17889853 AATACATTTTGGGCTTGTTTTAT
1 AATACATTTTAGGCTTGTTTTAT
17889876 CCACTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (23 bp):
AATACATTTTAGGCTTGTTTTAT
Found at i:17890098 original size:30 final size:31
Alignment explanation
Indices: 17890062--17890134 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
17890052 AAAGGTGTGC
*
17890062 AAAAAAAAAAGAAAAGGAAAAAAAG-TAGAA
1 AAAAAAAAAAGAAAAGGAAAAAAAGAAAGAA
* *
17890092 ACAAAAAAAAG--AAGTAAAAAAAGAAAGAA
1 AAAAAAAAAAGAAAAGGAAAAAAAGAAAGAA
17890121 AAAAAGAAAAAGAA
1 AAAAA-AAAAAGAA
17890135 GGGCAAATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 11 0.31
29 8 0.23
30 16 0.46
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (31 bp):
AAAAAAAAAAGAAAAGGAAAAAAAGAAAGAA
Found at i:17890129 original size:12 final size:13
Alignment explanation
Indices: 17890095--17890129 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
17890085 AGTAGAAACA
17890095 AAAAAAAG-AAGT
1 AAAAAAAGAAAGT
17890107 AAAAAAAGAAAG-
1 AAAAAAAGAAAGT
17890119 AAAAAAAGAAA
1 AAAAAAAGAAA
17890130 AAGAAGGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 19 0.86
13 3 0.14
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (13 bp):
AAAAAAAGAAAGT
Found at i:17890135 original size:30 final size:28
Alignment explanation
Indices: 17890062--17890136 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
17890052 AAAGGTGTGC
*
17890062 AAAAAAAAAAGAA-AAGGAAAAAAAGTAG
1 AAAAAAAAAA-AAGAAGGAAAAAAAGAAG
* *
17890090 AAACAAAAAAAAGAAGTAAAAAAAGAAAG
1 AAAAAAAAAAAAGAAGGAAAAAAAG-AAG
17890119 AAAAAAAGAAAAAGAAGG
1 AAAAAAA-AAAAAGAAGG
17890137 GCAAATGAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 2 0.05
28 20 0.51
29 8 0.21
30 9 0.23
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.03
Consensus pattern (28 bp):
AAAAAAAAAAAAGAAGGAAAAAAAGAAG
Found at i:17891533 original size:86 final size:87
Alignment explanation
Indices: 17891382--17891540 Score: 241
Period size: 86 Copynumber: 1.8 Consensus size: 87
17891372 TTTCTAACCT
* *
17891382 TTGCGAAACTTGAAATCTTTGATAATCAAGAACCTTTGCAAAACTTGGAATCTTGCAAAATTTTC
1 TTGCGAAACTTGAAATCTTTGAGAATCAAGAACCTTTGCAAAACTTGGAATCTAGCAAAATTTTC
17891447 ATTCTTGTGAATTTAAAAATTC
66 ATTCTTGTGAATTTAAAAATTC
* * **
17891469 TTGC-AAACTTGAAATCTTTGCGAATCTAGAACCTTTGCAAAACTTGGAATCTAG-TGAATCTTT
1 TTGCGAAACTTGAAATCTTTGAGAATCAAGAACCTTTGCAAAACTTGGAATCTAGCAAAAT-TTT
17891532 CATTCTTGT
65 CATTCTTGT
17891541 AAATCTGAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
85 3 0.05
86 58 0.89
87 4 0.06
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (87 bp):
TTGCGAAACTTGAAATCTTTGAGAATCAAGAACCTTTGCAAAACTTGGAATCTAGCAAAATTTTC
ATTCTTGTGAATTTAAAAATTC
Found at i:17891566 original size:86 final size:87
Alignment explanation
Indices: 17891380--17891567 Score: 231
Period size: 86 Copynumber: 2.2 Consensus size: 87
17891370 TTTTTCTAAC
* *
17891380 CTTTGCGAAACTTGAAATCTTTGATAATCAAGAACCTTTGCAAAACTTGGAATCTTGCAAAATTT
1 CTTTGCGAAACTTGAAATCTTTGAGAATCAAGAACCTTTGCAAAACTTGGAATCTAGCAAAATTT
* *
17891445 TCATTCTTGTGAATTTAAAAAT
66 TCATTCTTGTAAATCTAAAAAT
* * **
17891467 -TCTTGC-AAACTTGAAATCTTTGCGAATCTAGAACCTTTGCAAAACTTGGAATCTAG-TGAATC
1 CT-TTGCGAAACTTGAAATCTTTGAGAATCAAGAACCTTTGCAAAACTTGGAATCTAGCAAAAT-
*
17891529 TTTCATTCTTGTAAATCT-GAAAT
64 TTTCATTCTTGTAAATCTAAAAAT
* *
17891552 CTTTACGAATCTTGAA
1 CTTTGCGAAACTTGAA
17891568 CCTTTGCAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
85 10 0.12
86 72 0.84
87 4 0.05
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (87 bp):
CTTTGCGAAACTTGAAATCTTTGAGAATCAAGAACCTTTGCAAAACTTGGAATCTAGCAAAATTT
TCATTCTTGTAAATCTAAAAAT
Found at i:17891614 original size:68 final size:68
Alignment explanation
Indices: 17891478--17891617 Score: 165
Period size: 68 Copynumber: 2.1 Consensus size: 68
17891468 CTTGCAAACT
* * ** ** *
17891478 TGAAATCTTTGCGAATCTAGAACCTTTGCAAAACTTGGAATCTAGTGAATCTTTCATTCTTGTAA
1 TGAAATCTTTACGAATCTAGAACCTTTGCAAAACCTAAAATCTAGCCAATCTTTCATTCCTGTAA
17891543 ATC
66 ATC
* * * *
17891546 TGAAATCTTTACGAATCTTGAACCTTTGCAAAACCTAAAATCTTGCCAATTTTTC-TCTCCTGTG
1 TGAAATCTTTACGAATCTAGAACCTTTGCAAAACCTAAAATCTAGCCAATCTTTCAT-TCCTGTA
17891610 AATC
65 AATC
17891614 TGAA
1 TGAA
17891618 TGCCCTTACA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
67 1 0.02
68 59 0.98
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (68 bp):
TGAAATCTTTACGAATCTAGAACCTTTGCAAAACCTAAAATCTAGCCAATCTTTCATTCCTGTAA
ATC
Found at i:17892380 original size:17 final size:18
Alignment explanation
Indices: 17892349--17892411 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 18
17892339 TCGAATCAAT
*
17892349 TTTTATTA-ATGTTATTA
1 TTTTATTATATATTATTA
17892366 TTTTATTATAT-TTA-TA
1 TTTTATTATATATTATTA
* *
17892382 TGTTA-TATCATATTATTG
1 TTTTATTAT-ATATTATTA
17892400 TTATTATTATAT
1 TT-TTATTATAT
17892412 TATAATAGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
15 3 0.08
16 8 0.22
17 14 0.38
18 4 0.11
19 5 0.14
20 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTATTATATATTATTA
Found at i:17892409 original size:35 final size:36
Alignment explanation
Indices: 17892355--17892454 Score: 114
Period size: 38 Copynumber: 2.8 Consensus size: 36
17892345 CAATTTTTAT
* * *
17892355 TAATGTTATTATT-TTATTATATTTATATGTTAT-A
1 TAATATTATTATTATTATTATATTTATAGGGTATAA
* *
17892389 TCATATTATTGTTATTATTATATTATAATAGGGTATAA
1 TAATATTATTATTATTATTATATT-T-ATAGGGTATAA
17892427 TAATATTATTATTATTATTATTATTTAT
1 TAATATTATTATTATTATTA-TATTTAT
17892455 TTTTTTCTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
34 10 0.19
35 10 0.19
36 1 0.02
37 9 0.17
38 20 0.37
39 4 0.07
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (36 bp):
TAATATTATTATTATTATTATATTTATAGGGTATAA
Found at i:17900551 original size:14 final size:13
Alignment explanation
Indices: 17900526--17900564 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
17900516 GAAAGGATGT
17900526 AAAAAAAAA-AAA
1 AAAAAAAAAGAAA
*
17900538 AAAGAAAAAGAAA
1 AAAAAAAAAGAAA
17900551 AAAAAAGAAAGAAA
1 AAAAAA-AAAGAAA
17900565 TGAATGGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 8 0.35
13 8 0.35
14 7 0.30
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:17900551 original size:16 final size:16
Alignment explanation
Indices: 17900526--17900560 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
17900516 GAAAGGATGT
17900526 AAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAG
*
17900542 AAAAAGAAAAAAAAAG
1 AAAAAAAAAAAAAAAG
17900558 AAA
1 AAA
17900561 GAAATGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAG
Found at i:17901413 original size:33 final size:33
Alignment explanation
Indices: 17901376--17902289 Score: 801
Period size: 33 Copynumber: 27.8 Consensus size: 33
17901366 AAAAAAAAAA
*
17901376 AAACTTTAAGCCAAGTTTATCTGGCCATTAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
* *
17901409 AAACTTTAAGCCCAGTTTATCTGACCATCAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
** * * *
17901442 AGGCTTTAAGCCTAGTTTATCTAGCC-TCAAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCAT-TAATG
* *
17901475 AAGA-TTTAAGTCCAGTTTATCTGGCTATTAATG
1 AA-ACTTTAAGCCCAGTTTATCTGGCCATTAATG
** * *
17901508 AAGGTTTAAGCCTAGTTTATCTGACCATTAAT-
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
* *
17901540 AAAGCTTTAAGCCTAGCTTATCTGGCCATTAATG
1 AAA-CTTTAAGCCCAGTTTATCTGGCCATTAATG
*
17901574 AAACTTTAAGCTCAGTTTATCTGGCCATTAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
** *
17901607 AAGGTTTAAGCCTAGTTTATCTGGCCATTAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
* * * *
17901640 AAGCTTTAAGCCTAGCTTATCCGGCCATTAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
** * * *
17901673 AAACTTTAAGTTCAGTTTATCTGGCTATCAACG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
** * *
17901706 AGGCTTTAAGCCCAGTTTATTTGGCC-TCAAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCAT-TAATG
*** * * * **
17901739 AGGTTTTAAGCTCAGTTTATCTAGCAAACAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
**
17901772 AAGTTTTAAGCCCAGTTTATCTGGCCATTAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
* ** * *
17901805 AAGCTTTAAGCCCAACTTATCTAGCCATCAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
* *
17901838 AAACTTTAAGCTCAGTTTATCTGGCCATCAAT-
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
* * *
17901870 AAGGCTTTAAGCCCAATTTATCTGGCC-TCAAATG
1 AA-ACTTTAAGCCCAGTTTATCTGGCCAT-TAATG
** * ** *
17901904 AAGTTTTAAGCCTAGTTTATCTGGCCAACAACG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
* * * *
17901937 ACA-TTTAAGCCAAGTTTATCCGACCATTAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
* *
17901969 AAGCTTTAAGCCCAGTTTATCTAGCCATTAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
* * *
17902002 AAATATTTAAGCCCAATTTATCTGGCCATCAATG
1 AAA-CTTTAAGCCCAGTTTATCTGGCCATTAATG
* *
17902036 AAACTTTAAGCCCAGTTTATCTGACCATCAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
*
17902069 AAACTTGAAGCCCAG-TTATCTGGCCATTAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
* * * * *
17902101 AAGCTTTAAGCCCAGCTTATCTAGCTAGTAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
*** * * *
17902134 AGGTTTTAAACCTAGTTTATCTGGCC-TCAAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCAT-TAATG
* *
17902167 AAGA-TTTAAGCACAGTTTATCTGGCCATCAATG
1 AA-ACTTTAAGCCCAGTTTATCTGGCCATTAATG
* * *
17902200 ATA-TTTAAGCCCAGTTTATCTGACC-TCAAATG
1 AAACTTTAAGCCCAGTTTATCTGGCCAT-TAATG
*** * *
17902232 AGGTTTTAAGCCCAGTTTAGCTGGCCTTTAAT-
1 AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
* *
17902264 AAAATTTAAGCCCAGTTTATTTGGCC
1 AAACTTTAAGCCCAGTTTATCTGGCC
17902290 CCAAAAGAAG
Statistics
Matches: 716, Mismatches: 144, Indels: 43
0.79 0.16 0.05
Matches are distributed among these distances:
31 1 0.00
32 106 0.15
33 572 0.80
34 37 0.05
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (33 bp):
AAACTTTAAGCCCAGTTTATCTGGCCATTAATG
Found at i:17903118 original size:121 final size:122
Alignment explanation
Indices: 17902799--17903253 Score: 736
Period size: 121 Copynumber: 3.7 Consensus size: 122
17902789 AGCCATTTTC
* *
17902799 AAAAGATTTTTAAATTTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAG
1 AAAAGATTTTCAAATTTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAG
* * * *
17902864 ATTTATAAGACCTCCGGGCATAATCTCTAAAAGCCTCTGCGCACGACTTTTAAGATT
66 ATTTGTAAGACCTCCGAGCATAATCTATAAAAGCCTCTGCGCACGACTTTCAAGATT
* *
17902921 AAAAGATTTTTAAATTTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAG
1 AAAAGATTTTCAAATTTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAG
* * *
17902986 ATTTGTAAGACCTTCGAGCATAATCTATAAAAGCCTCTGCACATGACTTTCAAGATT
66 ATTTGTAAGACCTCCGAGCATAATCTATAAAAGCCTCTGCGCACGACTTTCAAGATT
* *
17903043 AAAAGATTTTCAAA-TTTTAAAGATTCATCGCCTCTGATTATGAGAAGCATTCAAAGATTTTGAG
1 AAAAGATTTTCAAATTTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAG
* *
17903107 ATTTGTAAGACCTCCGGGCATAACCTATAAAAGCCTCTGCGCACGACTTTCAAGATT
66 ATTTGTAAGACCTCCGAGCATAATCTATAAAAGCCTCTGCGCACGACTTTCAAGATT
*
17903164 AAAAGAATTTCAAA-TTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAG
1 AAAAGATTTTCAAATTTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAG
17903228 ATTTGTAAGACCTCC-AGGCATAATCT
66 ATTTGTAAGACCTCCGA-GCATAATCT
17903254 CTAAGACCTC
Statistics
Matches: 311, Mismatches: 21, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
121 183 0.59
122 128 0.41
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (122 bp):
AAAAGATTTTCAAATTTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAG
ATTTGTAAGACCTCCGAGCATAATCTATAAAAGCCTCTGCGCACGACTTTCAAGATT
Found at i:17903404 original size:88 final size:88
Alignment explanation
Indices: 17903255--17903439 Score: 273
Period size: 88 Copynumber: 2.1 Consensus size: 88
17903245 GCATAATCTC
* * * *
17903255 TAAGACCTCCGGGCATAAATTTGATTCGCGATGTTATCCTGATCGATTCTTTATCTTTTGACTTG
1 TAAGACTTCCGAGCATAAATTTGATTCACGATGTTATCCTGATCGATTCTTTATCTTTTGACTTA
* *
17903320 TGGTGTTATTTCAATCGATTCTG
66 CGATGTTATTTCAATCGATTCTG
*
17903343 TAAGACTTCCGAGCATAAATTTGATTCACGGTGTTAT-CTCGATCGATTCTTTATCTTTTGACTT
1 TAAGACTTCCGAGCATAAATTTGATTCACGATGTTATCCT-GATCGATTCTTTATCTTTTGACTT
* *
17903407 ACGATGTTATTTCAGTTGATTCTG
65 ACGATGTTATTTCAATCGATTCTG
17903431 TAAGACTTC
1 TAAGACTTC
17903440 TGGGCATGAT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 2 0.02
88 85 0.98
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (88 bp):
TAAGACTTCCGAGCATAAATTTGATTCACGATGTTATCCTGATCGATTCTTTATCTTTTGACTTA
CGATGTTATTTCAATCGATTCTG
Found at i:17903453 original size:23 final size:23
Alignment explanation
Indices: 17903423--17903491 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
17903413 TTATTTCAGT
* *
17903423 TGATTCTGTAAGACTTCTGGGCA
1 TGATTCTGTAAGACCTCCGGGCA
17903446 TGATTCTGTAAGACCTCCGGGCA
1 TGATTCTGTAAGACCTCCGGGCA
*
17903469 TGATT-TCTAAGACCTCCGGGCA
1 TGATTCTGTAAGACCTCCGGGCA
17903491 T
1 T
17903492 AATTTTGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
22 17 0.40
23 26 0.60
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (23 bp):
TGATTCTGTAAGACCTCCGGGCA
Found at i:17903482 original size:22 final size:22
Alignment explanation
Indices: 17903431--17903496 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
17903421 GTTGATTCTG
* * *
17903431 TAAGACTTCTGGGCATGATTCTG
1 TAAGACCTCCGGGCATGATT-TC
17903454 TAAGACCTCCGGGCATGATTTC
1 TAAGACCTCCGGGCATGATTTC
*
17903476 TAAGACCTCCGGGCATAATTT
1 TAAGACCTCCGGGCATGATTT
17903497 TGATTTGCAG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 21 0.54
23 18 0.46
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (22 bp):
TAAGACCTCCGGGCATGATTTC
Found at i:17903521 original size:133 final size:132
Alignment explanation
Indices: 17903343--17903593 Score: 351
Period size: 133 Copynumber: 1.9 Consensus size: 132
17903333 ATCGATTCTG
* * * * *
17903343 TAAGACTTCCGAGCATAAATTTGATTCACGGTGTTATCTCGATCGA-TTCTTTATCTTTTGACTT
1 TAAGACCTCCGAGCATAAATTTGATTCACAGTGTTATATCAATCGATTTC-TTATCTTTCGACTT
** * *
17903407 ACGATGTTATTTCAGTTGATTCTGTAAGACTTCTGGGCATGATTCTGTAAGACCTCCGGGCATGA
65 ACGATGTTATCCCAGTCGATTCTGTAAGACCTCTGGGCATGATT-TGTAAGACCTCCGGGCATGA
17903472 TTTC
129 TTTC
* * ** *
17903476 TAAGACCTCCGGGCATAATTTTGATTTGCAGTGTTATATCAATCGATTTCTTATCTTTCGACTTG
1 TAAGACCTCCGAGCATAAATTTGATTCACAGTGTTATATCAATCGATTTCTTATCTTTCGACTTA
17903541 CGATGTTATCCCAGTCGATTCTGTAAGACCTCTGGGCATGATTTGTAAGACCT
66 CGATGTTATCCCAGTCGATTCTGTAAGACCTCTGGGCATGATTTGTAAGACCT
17903594 TCAAGCATAA
Statistics
Matches: 103, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
132 10 0.10
133 90 0.87
134 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (132 bp):
TAAGACCTCCGAGCATAAATTTGATTCACAGTGTTATATCAATCGATTTCTTATCTTTCGACTTA
CGATGTTATCCCAGTCGATTCTGTAAGACCTCTGGGCATGATTTGTAAGACCTCCGGGCATGATT
TC
Found at i:17903645 original size:110 final size:110
Alignment explanation
Indices: 17903447--17903663 Score: 276
Period size: 110 Copynumber: 2.0 Consensus size: 110
17903437 TTCTGGGCAT
** * *
17903447 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAATTTTGATTTGCAGTGTTA
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCAAGCATAAATTTGATTCGCAGTGTTA
* * *
17903512 TATCAATCGATTTCTTATCTTTCGACTTGCGATGTTATCCCAGTC
66 TATCAATCGAATTCTTATCTTTCGACTTACGATGTCATCCCAGTC
* * *
17903557 GATTCTGTAAGACCTCTGGGCATGATTTGTAAGACCTTCAAGCATAAATTTGATTCGC-GATGTT
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCAAGCATAAATTTGATTCGCAG-TGTT
* * * *
17903621 ATCTCGATC-AATTCATTATTTTTCGACTTACGGTGTCATCCCA
65 ATATCAATCGAATTC-TTATCTTTCGACTTACGATGTCATCCCA
17903664 ATCGTTTTGT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
109 5 0.05
110 86 0.95
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (110 bp):
GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCAAGCATAAATTTGATTCGCAGTGTTA
TATCAATCGAATTCTTATCTTTCGACTTACGATGTCATCCCAGTC
Found at i:17905038 original size:16 final size:16
Alignment explanation
Indices: 17905017--17905078 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 16
17905007 TTAAAAATTT
*
17905017 TTTTTTTA-ATTTTTAA
1 TTTTTTTATATTATT-A
17905033 TTTTTTTATATTATTA
1 TTTTTTTATATTATTA
* *
17905049 TTTTTGTTATTTTAAGTA
1 TTTTT-TTATATT-ATTA
*
17905067 TATTTTTATATT
1 TTTTTTTATATT
17905079 TATGCATGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
16 14 0.37
17 17 0.45
18 7 0.18
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTTTTATATTATTA
Found at i:17905493 original size:16 final size:16
Alignment explanation
Indices: 17905461--17905577 Score: 110
Period size: 16 Copynumber: 7.2 Consensus size: 16
17905451 CTAAGTTTTT
17905461 AAAACCCCTAAAAATCC
1 AAAACCCCT-AAAATCC
* *
17905478 AAAATCCCTTAAATCC
1 AAAACCCCTAAAATCC
*
17905494 AAAGCCCCTAAAAATCC
1 AAAACCCCT-AAAATCC
** *
17905511 AAAGTCCCTGAAATCC
1 AAAACCCCTAAAATCC
* *
17905527 -AATCCCCATAAAATTC
1 AAAACCCC-TAAAATCC
*
17905543 GAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
17905559 AAAACCCCTTAAATCC
1 AAAACCCCTAAAATCC
17905575 AAA
1 AAA
17905578 GTCCTCAAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
15 5 0.06
16 49 0.60
17 28 0.34
ACGTcount: A:0.46, C:0.33, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:17905502 original size:33 final size:33
Alignment explanation
Indices: 17905461--17905590 Score: 124
Period size: 32 Copynumber: 4.0 Consensus size: 33
17905451 CTAAGTTTTT
*
17905461 AAAACCCCTAAAAATCCAAAATCCCTTAAATCC
1 AAAACCCCTAAAAATCCAAAATCCCTAAAATCC
* * *
17905494 AAAGCCCCTAAAAATCCAAAGTCCCTGAAATCC
1 AAAACCCCTAAAAATCCAAAATCCCTAAAATCC
* * * *
17905527 -AATCCCC-ATAAAATTCGAAACCCCTAAAATCC
1 AAAACCCCTA-AAAATCCAAAATCCCTAAAATCC
* *
17905559 AAAACCCCT-TAAATCCAAAGT-CCTCAAAATCC
1 AAAACCCCTAAAAATCCAAAATCCCT-AAAATCC
17905591 TAAGGACACG
Statistics
Matches: 78, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
31 4 0.05
32 38 0.49
33 36 0.46
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.18
Consensus pattern (33 bp):
AAAACCCCTAAAAATCCAAAATCCCTAAAATCC
Found at i:17905588 original size:32 final size:33
Alignment explanation
Indices: 17905461--17905590 Score: 133
Period size: 33 Copynumber: 4.0 Consensus size: 33
17905451 CTAAGTTTTT
* *
17905461 AAAACCCCTAAAAATCCAAAATCCCTTAAATCC
1 AAAACCCCTAAAAATCCAAAGTCCCTAAAATCC
* *
17905494 AAAGCCCCTAAAAATCCAAAGTCCCTGAAATCC
1 AAAACCCCTAAAAATCCAAAGTCCCTAAAATCC
* * * *
17905527 -AATCCCCATAAAATTCGAAA-CCCCTAAAATCC
1 AAAACCCC-TAAAAATCCAAAGTCCCTAAAATCC
*
17905559 AAAACCCCT-TAAATCCAAAGT-CCTCAAAATCC
1 AAAACCCCTAAAAATCCAAAGTCCCT-AAAATCC
17905591 TAAGGACACG
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
31 10 0.12
32 24 0.30
33 46 0.57
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.18
Consensus pattern (33 bp):
AAAACCCCTAAAAATCCAAAGTCCCTAAAATCC
Found at i:17906732 original size:22 final size:21
Alignment explanation
Indices: 17906703--17906748 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
17906693 TTGAGATTTG
17906703 TAAAACCTTCAGGCATAATCT
1 TAAAACCTTCAGGCATAATCT
** *
17906724 TAAAGACCTTTGGGCATAATTT
1 TAAA-ACCTTCAGGCATAATCT
17906746 TAA
1 TAA
17906749 GATCTCTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (21 bp):
TAAAACCTTCAGGCATAATCT
Found at i:17906849 original size:43 final size:42
Alignment explanation
Indices: 17906802--17906888 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 42
17906792 GAGGAACTTC
17906802 TTAAA-TTTTAAAAAGTTATTGAACCTCTACTTA-GAGGAGCCAT
1 TTAAATTTTTAAAAA-TTATTGAACCTCTA-TTATGAGGAG-CAT
* *
17906845 TTAAATTTTTAAAAATTGTTGAGCCTCTATTATGAGGAGCAT
1 TTAAATTTTTAAAAATTATTGAACCTCTATTATGAGGAGCAT
17906887 TT
1 TT
17906889 TGATTTGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
42 8 0.20
43 23 0.57
44 9 0.22
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (42 bp):
TTAAATTTTTAAAAATTATTGAACCTCTATTATGAGGAGCAT
Found at i:17908254 original size:3 final size:3
Alignment explanation
Indices: 17908248--17908273 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17908238 TGTTGTTTTT
17908248 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
17908274 GAAAATAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:17908338 original size:21 final size:22
Alignment explanation
Indices: 17908314--17908363 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
17908304 GAAAAATATA
**
17908314 ATTAAAATTTTTGAT-AATTTT
1 ATTAAAATTTAAGATAAATTTT
17908335 ATTAAAATTTAAGATAAATTTT
1 ATTAAAATTTAAGATAAATTTT
17908357 A-TAAAAT
1 ATTAAAAT
17908364 AATATTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTAAAATTTAAGATAAATTTT
Found at i:17908518 original size:16 final size:17
Alignment explanation
Indices: 17908491--17908526 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
17908481 TAATTAATTG
17908491 AAATAATAAAAATAATA
1 AAATAATAAAAATAATA
17908508 AAATAAT-AAAATAATA
1 AAATAATAAAAATAATA
17908524 AAA
1 AAA
17908527 AATGTAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AAATAATAAAAATAATA
Found at i:17908690 original size:20 final size:21
Alignment explanation
Indices: 17908648--17908696 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
17908638 GATTATTTAT
17908648 AAAAATGTTCAATACAATAAA
1 AAAAATGTTCAATACAATAAA
* *
17908669 AAAAATTTTCTATA-AATTAAA
1 AAAAATGTTCAATACAA-TAAA
17908690 ATAAAAT
1 A-AAAAT
17908697 TAACTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 17 0.71
22 5 0.21
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAATGTTCAATACAATAAA
Found at i:17908706 original size:21 final size:22
Alignment explanation
Indices: 17908665--17908717 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
17908655 TTCAATACAA
**
17908665 TAAAA-AAAATTTTCTATAAAT
1 TAAAATAAAATTAACTATAAAT
17908686 TAAAATAAAATTAACTA-AAAT
1 TAAAATAAAATTAACTATAAAT
*
17908707 TATTAATAAAA
1 TA-AAATAAAA
17908718 AAGTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (22 bp):
TAAAATAAAATTAACTATAAAT
Found at i:17911147 original size:8 final size:8
Alignment explanation
Indices: 17911134--17911181 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
17911124 TAATGCCAAA
17911134 ATTTTTAT
1 ATTTTTAT
17911142 ATTTTTAT
1 ATTTTTAT
*
17911150 GTTTTTTATT
1 -ATTTTTA-T
*
17911160 ATTTTTAA
1 ATTTTTAT
*
17911168 ATTTTTAA
1 ATTTTTAT
17911176 ATTTTT
1 ATTTTT
17911182 TTGGTTTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 22 0.63
9 12 0.34
10 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
ATTTTTAT
Found at i:17911172 original size:18 final size:17
Alignment explanation
Indices: 17911135--17911173 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
17911125 AATGCCAAAA
**
17911135 TTTTTATATTTTTATGT
1 TTTTTATATTTTTAAAT
17911152 TTTTTATTATTTTTAAAT
1 TTTTTA-TATTTTTAAAT
17911170 TTTT
1 TTTT
17911174 AAATTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTTATATTTTTAAAT
Found at i:17912242 original size:41 final size:41
Alignment explanation
Indices: 17912088--17912712 Score: 644
Period size: 41 Copynumber: 15.2 Consensus size: 41
17912078 AAAATAACAA
* * * **
17912088 TGCTTCTCTAAATAGAGGCTCAATGACTTTGAAAA-TAAAT
1 TGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAGTAAAT
* * * * * *
17912128 AAAGCTCCTTTAAACAGAGGCTCAACGACTTTGAAAA-TAAAT
1 --TGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAGTAAAT
* * * * * *
17912170 AAAGCTCCTCTAAACAAAGGCTCAACGACTTTGAAAAGTAAAT
1 --TGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAGTAAAT
* *
17912213 TGCTCTTCTAAATAAAGGCACCACAACTTTG-AAAGTAAAT
1 TGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAGTAAAT
*
17912253 TGCTCCT-TCAAATAAAGGCACCACAACTTTTG-AAAGTAAAT
1 TGCTCCTCT-AAATAGAGGCACCACAAC-TTTGAAAAGTAAAT
17912294 TGCTCCTCTAAATAGAGGCACCGA-AACTTTTG-AAAGTAAAT
1 TGCTCCTCTAAATAGAGGCACC-ACAAC-TTTGAAAAGTAAAT
* *
17912335 TGCTCCTCTAAATAGAGGCACCACGACTTTGGAAAA-TAAGT
1 TGCTCCTCTAAATAGAGGCACCACAACTTT-GAAAAGTAAAT
* * *
17912376 TACTTCTCTAAATAAAGGCACCACAACTTTG-AAAGTAAAT
1 TGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAGTAAAT
* * * *
17912416 TGCTCCTTTAAACAGAGGCACCTCAACTTTTGGAAAGTAAAT
1 TGCTCCTCTAAATAGAGGCACCACAAC-TTTGAAAAGTAAAT
** *
17912458 TGCTCCTCTAAATAGAGGCAACCATGACTTTGAAAAATAAAT
1 TGCTCCTCTAAATAGAGGC-ACCACAACTTTGAAAAGTAAAT
*
17912500 TGCTCCTTTAAATAGAGGCACCACAACTTTG-AAAGTAAAT
1 TGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAGTAAAT
* * *
17912540 TGCTCCTCTAAACAGAGACACCTCAACTTTTGAAAAGTAAAT
1 TGCTCCTCTAAATAGAGGCACCACAAC-TTTGAAAAGTAAAT
17912582 TGCTCCTCTAAATAGAGGCACCACAACTTCTG-AAAGTAAAT
1 TGCTCCTCTAAATAGAGGCACCACAACTT-TGAAAAGTAAAT
**
17912623 TGCTCCTCTAAATAGAGGCAACCATGACTTTGGAAAA-TAAAT
1 TGCTCCTCTAAATAGAGGC-ACCACAACTTT-GAAAAGTAAAT
* * * * *
17912665 TACTCTTCTAAACAGAGGCACCACGACTTTGAAAAATAAAT
1 TGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAGTAAAT
17912706 TGCTCCT
1 TGCTCCT
17912713 TAACAATCAT
Statistics
Matches: 510, Mismatches: 54, Indels: 39
0.85 0.09 0.06
Matches are distributed among these distances:
39 4 0.01
40 99 0.19
41 198 0.39
42 196 0.38
43 13 0.03
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (41 bp):
TGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAGTAAAT
Found at i:17913091 original size:42 final size:42
Alignment explanation
Indices: 17913011--17913091 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 42
17913001 TTTGGCAAAC
17913011 TTGGAATTCATATCCAAAAATCTAAAGCTTTTCATTTGAATT
1 TTGGAATTCATATCCAAAAATCTAAAGCTTTTCATTTGAATT
17913053 TTGGAGATTCATATCCAAAAAT-TCAAAGCTTTT-ATTTGA
1 TTGGA-ATTCATATCCAAAAATCT-AAAGCTTTTCATTTGA
17913092 GTTCAAAGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
42 12 0.32
43 25 0.68
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (42 bp):
TTGGAATTCATATCCAAAAATCTAAAGCTTTTCATTTGAATT
Found at i:17914536 original size:16 final size:16
Alignment explanation
Indices: 17914517--17914554 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
17914507 TTTTCTCTTT
17914517 TTTTTTAATTTTCGCC
1 TTTTTTAATTTTCGCC
* *
17914533 TTTTTTATTTTTCTCC
1 TTTTTTAATTTTCGCC
17914549 TTTTTT
1 TTTTTT
17914555 TTTCCACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.08, C:0.16, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTTAATTTTCGCC
Found at i:17914567 original size:37 final size:33
Alignment explanation
Indices: 17914502--17914572 Score: 88
Period size: 37 Copynumber: 2.0 Consensus size: 33
17914492 TCCTTTTATC
*
17914502 TTTTTTTTTCTCTTTTTTTTTAATTTTCGCCTT
1 TTTTTTTTTCTCTTTTTTTTTAACTTTCGCCTT
*
17914535 TTTTATTTTTCTCCTTTTTTTTTCCACCTTTCGCCTT
1 TTTT-TTTTTCT-CTTTTTTTTT--AACTTTCGCCTT
17914572 T
1 T
17914573 CACCATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 4 0.12
34 7 0.22
35 10 0.31
37 11 0.34
ACGTcount: A:0.06, C:0.21, G:0.03, T:0.70
Consensus pattern (33 bp):
TTTTTTTTTCTCTTTTTTTTTAACTTTCGCCTT
Found at i:17921020 original size:18 final size:18
Alignment explanation
Indices: 17920992--17921037 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
17920982 ATTCCAAAAA
17920992 TTTTA-TATTTTT-ATGTT
1 TTTTATTATTTTTAAT-TT
17921009 TTTTATTATTTTTAATTT
1 TTTTATTATTTTTAATTT
17921027 TTTTATT-TTTT
1 TTTTATTATTTT
17921038 GGTCTGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.33
18 16 0.59
19 2 0.07
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATTATTTTTAATTT
Found at i:17921037 original size:8 final size:8
Alignment explanation
Indices: 17920992--17921037 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 8
17920982 ATTCCAAAAA
*
17920992 TTTTATAT
1 TTTTATTT
17921000 TTTTATGTT
1 TTTTAT-TT
17921009 TTTTATTAT
1 TTTTATT-T
17921018 TTTTAATTT
1 TTTT-ATTT
17921027 TTTTATTT
1 TTTTATTT
17921035 TTT
1 TTT
17921038 GGTCTGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
8 14 0.41
9 17 0.50
10 3 0.09
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTATTT
Found at i:17923709 original size:24 final size:22
Alignment explanation
Indices: 17923681--17923727 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
17923671 TTTTTTAGCC
17923681 ATAAAAATGTTATTATAAAAAATA
1 ATAAAAATGTT-TTA-AAAAAATA
*
17923705 ATAAAAATGTTTTAAATAAATA
1 ATAAAAATGTTTTAAAAAAATA
17923727 A
1 A
17923728 AATGTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (22 bp):
ATAAAAATGTTTTAAAAAAATA
Found at i:17926981 original size:19 final size:19
Alignment explanation
Indices: 17926959--17926997 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
17926949 TCACTTAAAA
*
17926959 ATTAATTGTATCATTGGAT
1 ATTAATCGTATCATTGGAT
17926978 ATTAATCGTATCATTGGAT
1 ATTAATCGTATCATTGGAT
17926997 A
1 A
17926998 AAATTAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (19 bp):
ATTAATCGTATCATTGGAT
Found at i:17928853 original size:3 final size:3
Alignment explanation
Indices: 17928845--17928885 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
17928835 TTCTTTAGGC
* *
17928845 ATA ATA ATA ATA ATG ATT ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
17928886 TGTAATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:17928891 original size:6 final size:6
Alignment explanation
Indices: 17928845--17928904 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
17928835 TTCTTTAGGC
* * * * * * *
17928845 ATAATA ATAATA ATGATT ATAATA ATAATA ATAATA ATAATT GTAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
17928893 ATAATT ATAATT
1 ATAATT ATAATT
17928905 GATCTTGTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (6 bp):
ATAATT
Found at i:17928904 original size:12 final size:12
Alignment explanation
Indices: 17928845--17928903 Score: 73
Period size: 12 Copynumber: 4.9 Consensus size: 12
17928835 TTCTTTAGGC
*
17928845 ATAATAATAATA
1 ATAATTATAATA
*
17928857 ATGATTATAATA
1 ATAATTATAATA
*
17928869 ATAATAATAATA
1 ATAATTATAATA
* *
17928881 ATAATTGTAATT
1 ATAATTATAATA
17928893 ATAATTATAAT
1 ATAATTATAAT
17928904 TGATCTTGTA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (12 bp):
ATAATTATAATA
Found at i:17929701 original size:8 final size:9
Alignment explanation
Indices: 17929680--17929705 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
17929670 ATTTTGATCC
17929680 AAAAATTAT
1 AAAAATTAT
17929689 AAAAATTAT
1 AAAAATTAT
17929698 AAAAATTA
1 AAAAATTA
17929706 CATTAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:17937019 original size:5 final size:5
Alignment explanation
Indices: 17937004--17937035 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
17936994 TGCCAAATTC
17937004 TAAAA -AAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA
17937036 TATTTAAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:17937079 original size:33 final size:33
Alignment explanation
Indices: 17937037--17937379 Score: 394
Period size: 33 Copynumber: 10.5 Consensus size: 33
17937027 ATAAAATAAT
*
17937037 ATTTAAGCCCAGTTTATCTAGCC-TCAAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATC-AATGAAG
*
17937070 ATTTAAGCCCAGTTTATTTGGCCATCAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
17937103 TTTTAAGCCCAATTTATCTGGCCATCAATG-AT
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
17937135 ATTTAAGCCCAGTTTATTTGGCCATTAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
17937168 CTTTAAGCCCAGTTTATCTGGCTC-TCAATGAA-
1 ATTTAAGCCCAGTTTATCTGGC-CATCAATGAAG
* * * *
17937200 ACTTTAAGCCCAGTTTATCTAGCTAACAATG-AC
1 A-TTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
17937233 ATTTAAGCCCAGTTTATCTGGCCATTAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
17937266 CTTTAAGCCCAGTTCATCTGGCCATCAATGAGG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * * *
17937299 TTTTAAGCTCAATTTATCTGGCCATCAAT-AAA
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
17937331 ATTTAAGCCCAGTTTAGCTGGCCTTCAAT-AAA
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
17937363 ATTTAAGCCAAGTTTAT
1 ATTTAAGCCCAGTTTAT
17937380 TTAGCCCCAA
Statistics
Matches: 263, Mismatches: 40, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
32 96 0.37
33 164 0.62
34 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (33 bp):
ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
Found at i:17937156 original size:65 final size:65
Alignment explanation
Indices: 17937038--17937379 Score: 397
Period size: 65 Copynumber: 5.2 Consensus size: 65
17937028 TAAAATAATA
* *
17937038 TTTAAGCCCAGTTTATCTAGCC-TCAAATGAAGATTTAAGCCCAGTTTATTTGGCCATCAATGAA
1 TTTAAGCCCAGTTTATCTGGCCATC-AATGAA-ATTTAAGCCCAGTTTATCTGGCCATCAATGAA
17937102 GT
64 GT
* * * * *
17937104 TTTAAGCCCAATTTATCTGGCCATCAATGATATTTAAGCCCAGTTTATTTGGCCATTAATGAAGC
1 TTTAAGCCCAGTTTATCTGGCCATCAATGAAATTTAAGCCCAGTTTATCTGGCCATCAATGAAGT
* * *
17937169 TTTAAGCCCAGTTTATCTGGCTC-TCAATGAAACTTTAAGCCCAGTTTATCTAGCTAACAATGAC
1 TTTAAGCCCAGTTTATCTGGC-CATCAATGAAA-TTTAAGCCCAGTTTATCTGGCCATCAATGA-
17937233 A--
63 AGT
* * * *
17937234 TTTAAGCCCAGTTTATCTGGCCATTAATGAAGCTTTAAGCCCAGTTCATCTGGCCATCAATGAGG
1 TTTAAGCCCAGTTTATCTGGCCATCAATGAA-ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
17937299 T
65 T
* * * * * **
17937300 TTTAAGCTCAATTTATCTGGCCATCAATAAAATTTAAGCCCAGTTTAGCTGGCCTTCAAT-AAAA
1 TTTAAGCCCAGTTTATCTGGCCATCAATGAAATTTAAGCCCAGTTTATCTGGCCATCAATGAAGT
*
17937364 TTTAAGCCAAGTTTAT
1 TTTAAGCCCAGTTTAT
17937380 TTAGCCCCAA
Statistics
Matches: 235, Mismatches: 33, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
64 15 0.06
65 139 0.59
66 78 0.33
67 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (65 bp):
TTTAAGCCCAGTTTATCTGGCCATCAATGAAATTTAAGCCCAGTTTATCTGGCCATCAATGAAGT
Found at i:17937206 original size:98 final size:98
Alignment explanation
Indices: 17937035--17937379 Score: 446
Period size: 98 Copynumber: 3.5 Consensus size: 98
17937025 AAATAAAATA
* * * *
17937035 ATATTTAAGCCCAGTTTATCTAGCC-TCAAATGAAGATTTAAGCCCAGTTTATTTGGCCATCAAT
1 ATATTTAAGCCCAGTTTATCTGGCCAT-TAATGAAGCTTTAAGCCCAGTTTATCTGGCCATCAAT
17937099 GAAGTTTTAAGCCCAATTTATCTGGCCATCAATG
65 GAAGTTTTAAGCCCAATTTATCTGGCCATCAATG
*
17937133 ATATTTAAGCCCAGTTTATTTGGCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCTC-TCAAT
1 ATATTTAAGCCCAGTTTATCTGGCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGC-CATCAAT
** * * * *
17937197 GAAACTTTAAGCCCAGTTTATCTAGCTAACAATG
65 GAAGTTTTAAGCCCAATTTATCTGGCCATCAATG
* *
17937231 ACATTTAAGCCCAGTTTATCTGGCCATTAATGAAGCTTTAAGCCCAGTTCATCTGGCCATCAATG
1 ATATTTAAGCCCAGTTTATCTGGCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATCAATG
* * *
17937296 AGGTTTTAAGCTCAATTTATCTGGCCATCAATA
66 AAGTTTTAAGCCCAATTTATCTGGCCATCAATG
* * ** *
17937329 AAATTTAAGCCCAGTTTAGCTGGCC-TTCAAT-AAAATTTAAGCCAAGTTTAT
1 ATATTTAAGCCCAGTTTATCTGGCCATT-AATGAAGCTTTAAGCCCAGTTTAT
17937380 TTAGCCCCAA
Statistics
Matches: 214, Mismatches: 29, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
97 19 0.09
98 193 0.90
99 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (98 bp):
ATATTTAAGCCCAGTTTATCTGGCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATCAATG
AAGTTTTAAGCCCAATTTATCTGGCCATCAATG
Found at i:17937901 original size:14 final size:14
Alignment explanation
Indices: 17937881--17937911 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
17937871 TCTTATTGAA
17937881 AAAAAAAACATTTTT
1 AAAAAAAA-ATTTTT
17937896 AAAAAAAAATTTTT
1 AAAAAAAAATTTTT
17937910 AA
1 AA
17937912 TTTTAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAAAAAAATTTTT
Found at i:17938220 original size:122 final size:121
Alignment explanation
Indices: 17937910--17938355 Score: 730
Period size: 121 Copynumber: 3.7 Consensus size: 121
17937900 AAAAATTTTT
* * *
17937910 AATTTTAAACTTTCATCGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCT
1 AATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGATTTGTAAGACCT
* * ** * *
17937975 CCGGACATAATCTCTAAAAGCCTCTACGCATGACTTTTAAGATTAAAATATTTTCA
66 CCGGGCATAATTTCTAAAAGCCTCTGTGCATGACTTTCAAGATTAAAAGATTTTCA
* *
17938031 AATTTTAAAGATTCATTGCCTCTGATTGTGAGGAGCATTCAAAGATTTTGAGATTTGTAAGACCT
1 AATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGATTTGTAAGACCT
* *
17938096 CCGGGTATAATTTCTAAAAGCCTCTGTGCATGACTTTCAAGATTAAAAGATTTTTA
66 CCGGGCATAATTTCTAAAAGCCTCTGTGCATGACTTTCAAGATTAAAAGATTTTCA
17938152 AATTTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGATTTGTAAGACC
1 AA-TTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGATTTGTAAGACC
17938217 TCCGGGCATAATTTCTAAAAGCCTCTGTGCATGACTTTCAAGATTAAAAGATTTTCA
65 TCCGGGCATAATTTCTAAAAGCCTCTGTGCATGACTTTCAAGATTAAAAGATTTTCA
* *
17938274 AATTTTAAAATTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGATTTGTAAGATCT
1 AATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGATTTGTAAGACCT
* *
17938339 CCGGACATGATTTCTAA
66 CCGGGCATAATTTCTAA
17938356 GACCTCCGAG
Statistics
Matches: 303, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
121 186 0.61
122 117 0.39
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (121 bp):
AATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGATTTGTAAGACCT
CCGGGCATAATTTCTAAAAGCCTCTGTGCATGACTTTCAAGATTAAAAGATTTTCA
Found at i:17938354 original size:243 final size:241
Alignment explanation
Indices: 17937899--17938355 Score: 745
Period size: 243 Copynumber: 1.9 Consensus size: 241
17937889 CATTTTTAAA
*
17937899 AAAAAATTTTTAATTTTAAACTTTCATCGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGAT
1 AAAAAATTTTTAATTTTAAACTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGAT
* *
17937964 TTGTAAGACCTCCGGACATAATCTCTAAAAGCCTCTACGCATGACTTTTAAGATTAAAATATTTT
66 TTGTAAGACCTCCGGACATAATCTCTAAAAGCCTCTACGCATGACTTTCAAGATTAAAAGATTTT
*
17938029 CAAATTTTAAAGATTCATTGCCTCTGATTGTGAGGAGCATTCAAAGATTTTGAGATTTGTAAGAC
131 CAAATTTTAAAGATTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGATTTGTAAGAC
**
17938094 CTCCGGGTATAATTTCTAAAAGCCTCTGTGCATGACTTTCAAGATT
196 CTCCGGACATAATTTCTAAAAGCCTCTGTGCATGACTTTCAAGATT
* * *
17938140 AAAAGATTTTTAAATTTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAG
1 AAAAAATTTTT-AA-TTTTAAACTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAG
* * **
17938205 ATTTGTAAGACCTCCGGGCATAATTTCTAAAAGCCTCTGTGCATGACTTTCAAGATTAAAAGATT
64 ATTTGTAAGACCTCCGGACATAATCTCTAAAAGCCTCTACGCATGACTTTCAAGATTAAAAGATT
17938270 TTCAAATTTTAAA-ATTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGATTTGTAA
129 TTCAAATTTTAAAGA-TTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGATTTGTAA
* *
17938334 GATCTCCGGACATGATTTCTAA
193 GACCTCCGGACATAATTTCTAA
17938356 GACCTCCGAG
Statistics
Matches: 198, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
241 10 0.05
242 3 0.02
243 185 0.93
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (241 bp):
AAAAAATTTTTAATTTTAAACTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGAT
TTGTAAGACCTCCGGACATAATCTCTAAAAGCCTCTACGCATGACTTTCAAGATTAAAAGATTTT
CAAATTTTAAAGATTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGATTTGTAAGAC
CTCCGGACATAATTTCTAAAAGCCTCTGTGCATGACTTTCAAGATT
Found at i:17938510 original size:23 final size:22
Alignment explanation
Indices: 17938441--17938536 Score: 106
Period size: 23 Copynumber: 4.4 Consensus size: 22
17938431 GTCGATTCTG
17938441 TAAGACCTCCGGGCATGATTTC
1 TAAGACCTCCGGGCATGATTTC
** * *
17938463 TAAGACCTCTAGG--TAATTTTT
1 TAAGACCTCCGGGCATGA-TTTC
*
17938484 TAAGACCTCCGGGCATGATTTTA
1 TAAGACCTCCGGGCATGA-TTTC
*
17938507 TAAGACCTCTGGGCATGATTTC
1 TAAGACCTCCGGGCATGATTTC
17938529 TAAGACCT
1 TAAGACCT
17938537 TCAGGCATAA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
20 2 0.03
21 14 0.23
22 22 0.36
23 23 0.38
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (22 bp):
TAAGACCTCCGGGCATGATTTC
Found at i:17938543 original size:22 final size:23
Alignment explanation
Indices: 17938441--17938544 Score: 85
Period size: 22 Copynumber: 4.7 Consensus size: 23
17938431 GTCGATTCTG
*
17938441 TAAGACCTCCGGGCATGA-TTTC
1 TAAGACCTTCGGGCATGATTTTC
* * *
17938463 TAAGACC-TCTAGG--TAATTTTT
1 TAAGACCTTC-GGGCATGATTTTC
* *
17938484 TAAGACCTCCGGGCATGATTTTA
1 TAAGACCTTCGGGCATGATTTTC
17938507 TAAGACC-TCTGGGCATGA-TTTC
1 TAAGACCTTC-GGGCATGATTTTC
*
17938529 TAAGACCTTCAGGCAT
1 TAAGACCTTCGGGCAT
17938545 AAATTTGATT
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
20 2 0.03
21 13 0.20
22 26 0.41
23 23 0.36
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (23 bp):
TAAGACCTTCGGGCATGATTTTC
Found at i:17938876 original size:22 final size:22
Alignment explanation
Indices: 17938848--17938934 Score: 106
Period size: 22 Copynumber: 4.0 Consensus size: 22
17938838 TTCAATTCTG
17938848 TAAGACCTTCGAGCATGATTTT
1 TAAGACCTTCGAGCATGATTTT
*
17938870 TAAGACCTTCGGGCA--ATTTT
1 TAAGACCTTCGAGCATGATTTT
* * *
17938890 GTAAGACCTCCGGGCATGATTTC
1 -TAAGACCTTCGAGCATGATTTT
*
17938913 TAAGACCTTCGAGCATAATTTT
1 TAAGACCTTCGAGCATGATTTT
17938935 GATTCGCGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
20 5 0.09
21 14 0.25
22 32 0.58
23 4 0.07
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (22 bp):
TAAGACCTTCGAGCATGATTTT
Found at i:17938907 original size:43 final size:43
Alignment explanation
Indices: 17938840--17938923 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
17938830 TTATCCTATT
* *
17938840 CAATTCTGTAAGACCTTCGAGCATGATTTTTAAGACCTTCGGG
1 CAATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTTCGGG
* *
17938883 CAATTTTGTAAGACCTCCGGGCATGATTTCTAAGACCTTCG
1 CAATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTTCG
17938924 AGCATAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (43 bp):
CAATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTTCGGG
Found at i:17939024 original size:109 final size:109
Alignment explanation
Indices: 17938883--17939240 Score: 448
Period size: 109 Copynumber: 3.3 Consensus size: 109
17938873 GACCTTCGGG
* * *
17938883 CAATTTTGTAAGACCTCCGGGCATGATTTCTAAGACCTTCGAGCATAATTTTGATTCGCGGTGTT
1 CAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTTCGGGTATAATTTTGATTCGCGGTGTT
* * * * *
17938948 ATCCCGATCGATTCTTTGTTTCTAACTTATGGTGTTATCTCATT
66 ATCCCGATCGATTCTTTATTTCTGACTTACGATGTTATCTCAAT
* * * * * *
17938992 CAATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTCCGGGTATAATTTCGATTTGCAGTATT
1 CAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTTCGGGTATAATTTTGATTCGCGGTGTT
* *
17939057 ATCTCGATCGATTCTTTATTTCTGACTTACGATGTTATCCCAAT
66 ATCCCGATCGATTCTTTATTTCTGACTTACGATGTTATCTCAAT
* * * *
17939101 CAATTCTGTAAGACCCCCGGGCATGATTCTGTAAGACCTTCGGGTATAATTTTGATTCGTGATGT
1 CAATTCTGTAAGACCTCCGGGCATGATT-TCTAAGACCTTCGGGTATAATTTTGATTCGCGGTGT
* * *
17939166 TATCCCGATCGATTCCTTATCTT-TCGACTTACGATGTTATTTCAGT
65 TATCCCGATCGATTCTTTAT-TTCT-GACTTACGATGTTATCTCAAT
* * *
17939212 CGATTTTGTAAGACCTCCGGGCATAATTT
1 CAATTCTGTAAGACCTCCGGGCATGATTT
17939241 TAATTCGTGA
Statistics
Matches: 211, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
109 119 0.56
110 48 0.23
111 44 0.21
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (109 bp):
CAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTTCGGGTATAATTTTGATTCGCGGTGTT
ATCCCGATCGATTCTTTATTTCTGACTTACGATGTTATCTCAAT
Found at i:17939042 original size:22 final size:22
Alignment explanation
Indices: 17939000--17939043 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17938990 TTCAATTCTG
*
17939000 TAAGACCTCCGAGCATGATTTC
1 TAAGACCTCCGAGCATAATTTC
* *
17939022 TAAGACCTCCGGGTATAATTTC
1 TAAGACCTCCGAGCATAATTTC
17939044 GATTTGCAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (22 bp):
TAAGACCTCCGAGCATAATTTC
Found at i:17939279 original size:88 final size:86
Alignment explanation
Indices: 17939125--17939321 Score: 313
Period size: 88 Copynumber: 2.3 Consensus size: 86
17939115 CCCCGGGCAT
* * *
17939125 GATTCTGTAAGACCTTCGGGTATAATTTTGATTCGTGATGTTATCCCGATCGATTCCTTATCTTT
1 GATTCTGTAAGACCTCCGGGCATAATTTTAATTCGTGATGTTATCCCGATCGATTCCTTATCTTT
*
17939190 CGACTTACGATGTTATTTCAGTC
66 CGA-TTACGATGTTATCT-AGTC
*
17939213 GATTTTGTAAGACCTCCGGGCATAATTTTAATTCGTGATGTTATCCCGATCGATTCCTTATCTTT
1 GATTCTGTAAGACCTCCGGGCATAATTTTAATTCGTGATGTTATCCCGATCGATTCCTTATCTTT
**
17939278 CGATTGTGATGTTATCTAGTC
66 CGATTACGATGTTATCTAGTC
17939299 GATTCTGTAAGACCTCCGGGCAT
1 GATTCTGTAAGACCTCCGGGCAT
17939322 GATTCTATAA
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 26 0.26
87 11 0.11
88 64 0.63
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (86 bp):
GATTCTGTAAGACCTCCGGGCATAATTTTAATTCGTGATGTTATCCCGATCGATTCCTTATCTTT
CGATTACGATGTTATCTAGTC
Found at i:17939394 original size:22 final size:22
Alignment explanation
Indices: 17939306--17939394 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
17939296 GTCGATTCTG
*
17939306 TAAGACCTCCGGGCATGATTCTA
1 TAAGACCTCCGGGCATGATT-TC
* *
17939329 TAAGACCTCCGGACATGATTTT
1 TAAGACCTCCGGGCATGATTTC
** *
17939351 TAAGATTTTCGGGCATGATTTC
1 TAAGACCTCCGGGCATGATTTC
* *
17939373 TAAGACCTCCAGGCATAATTTC
1 TAAGACCTCCGGGCATGATTTC
17939395 GATTCGCGGT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
22 35 0.65
23 19 0.35
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (22 bp):
TAAGACCTCCGGGCATGATTTC
Found at i:17939485 original size:22 final size:22
Alignment explanation
Indices: 17939460--17939503 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17939450 GTTAATTCTG
*
17939460 TAAGACCTCCGAGCATGATTTC
1 TAAGACCTCCGAGCATCATTTC
*
17939482 TAAGACCTCCGGGCATCATTTC
1 TAAGACCTCCGAGCATCATTTC
17939504 GATTCACGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (22 bp):
TAAGACCTCCGAGCATCATTTC
Found at i:17939550 original size:109 final size:109
Alignment explanation
Indices: 17939363--17939711 Score: 445
Period size: 109 Copynumber: 3.2 Consensus size: 109
17939353 AGATTTTCGG
* *
17939363 GCATGATTTCTAAGACCTCCAGGCATAATTTCGATTCGCGGTGTTGTCCTGATCGATTCTTTAT-
1 GCATGATTTCTAAGACCTCCAGGCATAATTTCGATTCGCGGTGTTATCCTGATCGATTCCTTATC
*
17939427 TTCTGACTTACGATGTTA-CCCGAGTTAATTCTGTAAGACCTCCGA
66 TTTTGACTTACGATGTTATCCC-AGTT-ATTCTGTAAGACCTCCGA
* * * *
17939472 GCATGATTTCTAAGACCTCCGGGCATCATTTCGATTCACGGTGTTATTCTGATCGATTCCTTATC
1 GCATGATTTCTAAGACCTCCAGGCATAATTTCGATTCGCGGTGTTATCCTGATCGATTCCTTATC
* * *
17939537 TTTTGAC-TGCGATGTTATCTCAGTCTATCCTGTAAGACCTCCGA
66 TTTTGACTTACGATGTTATCCCAGT-TATTCTGTAAGACCTCCGA
* * * *
17939581 GCACGATTTTTAAGACCTCCAGGCATAATTTCAATTCGCGGTGTTATCCCGATCGATTCCTTATC
1 GCATGATTTCTAAGACCTCCAGGCATAATTTCGATTCGCGGTGTTATCCTGATCGATTCCTTATC
* * * *
17939646 TTTCGACTTACGATATTATTCCAGTCGATTCTGTAAGACCTCCG-
66 TTTTGACTTACGATGTTATCCCAGT-TATTCTGTAAGACCTCCGA
*
17939690 GACATGATTTTATAAGACCTCC
1 G-CATGA-TTTCTAAGACCTCC
17939712 TAAGACCTCC
Statistics
Matches: 207, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
109 151 0.73
110 43 0.21
111 13 0.06
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (109 bp):
GCATGATTTCTAAGACCTCCAGGCATAATTTCGATTCGCGGTGTTATCCTGATCGATTCCTTATC
TTTTGACTTACGATGTTATCCCAGTTATTCTGTAAGACCTCCGA
Found at i:17939721 original size:33 final size:32
Alignment explanation
Indices: 17939679--17939743 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
17939669 GTCGATTCTG
*
17939679 TAAGACCTCCGGACATGATTTTATAAGACCTCC
1 TAAGACCTCCGGACATGATTCT-TAAGACCTCC
**
17939712 TAAGACCTCCGGGTATGATTCTTAAGACCTCC
1 TAAGACCTCCGGACATGATTCTTAAGACCTCC
17939744 GAGCATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 10 0.34
33 19 0.66
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (32 bp):
TAAGACCTCCGGACATGATTCTTAAGACCTCC
Found at i:17939768 original size:143 final size:143
Alignment explanation
Indices: 17939569--17939843 Score: 363
Period size: 143 Copynumber: 1.9 Consensus size: 143
17939559 GTCTATCCTG
* * *
17939569 TAAGACCTCCGAGCACGATTTTTAAGACCTCCAGGCATAATTTCAATTCGCGGTGTTATCCCGAT
1 TAAGACCTCCGAGCACGATTCTTAAGACCTCCAGGCATAATTTCAATTCGCAGTGTTATCCCAAT
* * *
17939634 CGATTCCTTATCTTTCGACTTACGATATTATTCCAGTCGATTCTGTAAGACCTCCGGACATGATT
66 CGATTCCTTATCTTTCGACTTACGATATTATCCCAATCGATTCTGTAAGACCTCCGGACATAATT
17939699 TTATAAGACCTCC
131 TTATAAGACCTCC
* * * * *
17939712 TAAGACCTCCGGGTATGATTCTTAAGACCTCC-GAGCATAATTTCGATTCGCAGTGTTATCCTAA
1 TAAGACCTCCGAGCACGATTCTTAAGACCTCCAG-GCATAATTTCAATTCGCAGTGTTATCCCAA
* * * * * * * *
17939776 TCGATTTCTTATCTTTTGACTTGCGGTGTTATCCCAATCGATTTTGTAAGATCTTCGGACATAAT
65 TCGATTCCTTATCTTTCGACTTACGATATTATCCCAATCGATTCTGTAAGACCTCCGGACATAAT
17939841 TTT
130 TTT
17939844 GATTCGCGGT
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
142 1 0.01
143 111 0.99
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (143 bp):
TAAGACCTCCGAGCACGATTCTTAAGACCTCCAGGCATAATTTCAATTCGCAGTGTTATCCCAAT
CGATTCCTTATCTTTCGACTTACGATATTATCCCAATCGATTCTGTAAGACCTCCGGACATAATT
TTATAAGACCTCC
Found at i:17939928 original size:87 final size:88
Alignment explanation
Indices: 17939728--17939990 Score: 343
Period size: 88 Copynumber: 3.0 Consensus size: 88
17939718 CTCCGGGTAT
* * * *
17939728 GATTCT-TAAGACCTCCGAGCATAATTTCGATTCGCAGTGTTATCCTAATCGATTTCTTATCTTT
1 GATTCTGTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCCTGATCGATTTATTATCTTT
17939792 TGACTTGCGGTGTTATCCCAATC
66 TGACTTGCGGTGTTATCCCAATC
* * * * * *
17939815 GATTTTGTAAGATCTTCGGACATAATTTTGATTCGCGGTGTTATCCCGATCGATTCT-TTATCTT
1 GATTCTGTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCCTGATCGATT-TATTATCTT
*
17939879 TTGAC-TGCGATGTTATCCCAATC
65 TTGACTTGCGGTGTTATCCCAATC
* * *
17939902 TATTCTGTAAGACCTCCGGGCATAATTTCGATTCGCGTGTGTTATCTTGATCGATTTATTATTTT
1 GATTCTGTAAGACCTCCGGGCATAATTTCGATTCGCG-GTGTTATCCTGATCGATTTATTA-TCT
*
17939967 TTTAACTTGCGGTGTTATCCCAAT
64 TTTGACTTGCGGTGTTATCCCAAT
17939991 TGTTTTGTTT
Statistics
Matches: 149, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
87 54 0.36
88 71 0.48
89 8 0.05
90 16 0.11
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.41
Consensus pattern (88 bp):
GATTCTGTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCCTGATCGATTTATTATCTTT
TGACTTGCGGTGTTATCCCAATC
Found at i:17941569 original size:17 final size:17
Alignment explanation
Indices: 17941549--17941615 Score: 66
Period size: 17 Copynumber: 4.0 Consensus size: 17
17941539 CTAAGTTTTT
17941549 AAAACCCCTAAAAATCC
1 AAAACCCCTAAAAATCC
*
17941566 AAAATCCCCT-AAAATTC
1 AAAA-CCCCTAAAAATCC
* *
17941583 AAAACCTCTTAAAATCC
1 AAAACCCCTAAAAATCC
**
17941600 -AAAGTCCTAAAAATCC
1 AAAACCCCTAAAAATCC
17941616 TAAAGACACG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
16 16 0.39
17 20 0.49
18 5 0.12
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.19
Consensus pattern (17 bp):
AAAACCCCTAAAAATCC
Found at i:17949733 original size:126 final size:125
Alignment explanation
Indices: 17949566--17949805 Score: 297
Period size: 126 Copynumber: 1.9 Consensus size: 125
17949556 TAGCAAAATG
* * *
17949566 TTTTAAAATTTTAAAGTTTCAAGGCCTTTTTTTAAAAGAGCAGTCAT-AGATGTTGAAATTTGTA
1 TTTTAAAATTTTAAAGTTTCAAAGCCTCTTTTTAAAAGAGCAGTCATGA-ATGTCGAAATTTG-A
* * *
17949630 A-GACCTTCGAACATAGTTTTTAAGTCT-TCTGAGCAAGATTCATAAGTTTTTCAGGAAGAATA
64 ATGACCTCCGAACATAGTCTTTAAGT-TATC-CAGCAAGATTCATAAGTTTTTCAGGAAGAATA
* * * * * *
17949692 TTTTAAACTTTTAAAGTTTCAAAGCCTCTTTTTAGAGGAGCATTTATGAATGTCGAGATTTGAAT
1 TTTTAAAATTTTAAAGTTTCAAAGCCTCTTTTTAAAAGAGCAGTCATGAATGTCGAAATTTGAAT
**
17949757 GACCTCCGGTCATAGTCTTTAAGTTATCCAGCAAGATTCATAAGTTTTT
66 GACCTCCGAACATAGTCTTTAAGTTATCCAGCAAGATTCATAAGTTTTT
17949806 TTAGCTGAAT
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
125 23 0.24
126 73 0.75
127 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.39
Consensus pattern (125 bp):
TTTTAAAATTTTAAAGTTTCAAAGCCTCTTTTTAAAAGAGCAGTCATGAATGTCGAAATTTGAAT
GACCTCCGAACATAGTCTTTAAGTTATCCAGCAAGATTCATAAGTTTTTCAGGAAGAATA
Found at i:17949806 original size:126 final size:120
Alignment explanation
Indices: 17949449--17949806 Score: 320
Period size: 125 Copynumber: 2.9 Consensus size: 120
17949439 ATGATGACAT
* * * * * * *
17949449 TTTTAAAGTTCCAAAGCCTCTTTTTAGAAGAGCATTTGTAAATATTAAGATTTGTACGATCTCAA
1 TTTTAAAGTTTCAAAGCCTCTTTTTAGAAGAGCATTTAT-AATGTTGAGATTTG-AAGACCTC-C
* * * * * * *
17949514 GGCATAGTCTCTAAGTTTTTGAGGCCAGATTCTTAAATCTTTTAGCAAAATGTTTTAAAA
63 GGCATAGTCTTTAAG-TTTCGA-GCAAGATTCATAAGTTTTTTAGCAAAATATTTTAAAA
* * * * * * *
17949574 TTTTAAAGTTTCAAGGCCTTTTTTTAAAAGAGCAGTCATAGATGTTGAAATTTGTAAGACCTTCG
1 TTTTAAAGTTTCAAAGCCTCTTTTTAGAAGAGCATTTATA-ATGTTGAGATTTG-AAGACCTCCG
* * * * *
17949639 AACATAGTTTTTAAGTCTTCTGAGCAAGATTCATAAGTTTTTCAGGAAGAATATTTTAAAC
64 -GCATAGTCTTTAAGT-TTC-GAGCAAGATTCATAAGTTTTTTAGCAA-AATATTTTAAAA
* *
17949700 TTTTAAAGTTTCAAAGCCTCTTTTTAGAGGAGCATTTATGAATGTCGAGATTTGAATGACCTCCG
1 TTTTAAAGTTTCAAAGCCTCTTTTTAGAAGAGCATTTAT-AATGTTGAGATTTGAA-GACCTCCG
*
17949765 GTCATAGTCTTTAAGTTATCCAGCAAGATTCATAAGTTTTTT
64 G-CATAGTCTTTAAGTT-TCGAGCAAGATTCATAAGTTTTTT
17949807 TAGCTGAATC
Statistics
Matches: 185, Mismatches: 39, Indels: 18
0.76 0.16 0.07
Matches are distributed among these distances:
124 3 0.02
125 103 0.56
126 78 0.42
127 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (120 bp):
TTTTAAAGTTTCAAAGCCTCTTTTTAGAAGAGCATTTATAATGTTGAGATTTGAAGACCTCCGGC
ATAGTCTTTAAGTTTCGAGCAAGATTCATAAGTTTTTTAGCAAAATATTTTAAAA
Found at i:17952690 original size:3 final size:3
Alignment explanation
Indices: 17952682--17952727 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
17952672 TTTAAATTTC
17952682 ATA ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
17952728 GTAGTAGTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17952732 original size:3 final size:3
Alignment explanation
Indices: 17952726--17952790 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
17952716 ATAATAATAA
17952726 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
17952774 TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TA
17952791 ATAATAATAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:17956251 original size:22 final size:22
Alignment explanation
Indices: 17956226--17956267 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17956216 AGGATCCTAT
17956226 TCCTAAAACCTTATAATCCTGA
1 TCCTAAAACCTTATAATCCTGA
* *
17956248 TCCTAAGACTTTATAATCCT
1 TCCTAAAACCTTATAATCCT
17956268 ATCTATAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (22 bp):
TCCTAAAACCTTATAATCCTGA
Found at i:17956276 original size:22 final size:22
Alignment explanation
Indices: 17956236--17956277 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17956226 TCCTAAAACC
*
17956236 TTATAATCCTGATCCTAAGACT
1 TTATAATCCTGATCATAAGACT
17956258 TTATAATCCT-ATCTATAAGA
1 TTATAATCCTGATC-ATAAGA
17956278 TCAGTGCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (22 bp):
TTATAATCCTGATCATAAGACT
Found at i:17959934 original size:59 final size:59
Alignment explanation
Indices: 17959843--17960042 Score: 232
Period size: 59 Copynumber: 3.4 Consensus size: 59
17959833 TTTTAGGGGG
*
17959843 TTATT-AAGGCATTTTTTGGCCAAAACGCCTTTCAATAATCCCCTTCCATTTTTTTTGGA
1 TTATTCAAGGTATTTTTTGGCCAAAACG-CTTTCAATAATCCCCTTCCATTTTTTTTGGA
* *
17959902 TTATTCAAGGTA-TTTTTGACCTAAAACGCTTTCAATAATCCCC-TCACATTATTTTTAGGGA
1 TTATTCAAGGTATTTTTTGGCC-AAAACGCTTTCAATAATCCCCTTC-CATT-TTTTT-TGGA
* * *
17959963 TTATTCAAGGTATTTTTTGGCCAAAAACACTTTCAATAAT-CCCTTCAATTTTTTTT-TA
1 TTATTCAAGGTATTTTTTGGCC-AAAACGCTTTCAATAATCCCCTTCCATTTTTTTTGGA
* *
17960021 TTATTCAAAG-AGTTTTTGGCCA
1 TTATTCAAGGTATTTTTTGGCCA
17960043 GAAAATACCT
Statistics
Matches: 123, Mismatches: 11, Indels: 17
0.81 0.07 0.11
Matches are distributed among these distances:
56 1 0.01
57 10 0.08
58 12 0.10
59 32 0.26
60 21 0.17
61 21 0.17
62 26 0.21
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (59 bp):
TTATTCAAGGTATTTTTTGGCCAAAACGCTTTCAATAATCCCCTTCCATTTTTTTTGGA
Found at i:17960018 original size:61 final size:59
Alignment explanation
Indices: 17959843--17960065 Score: 231
Period size: 58 Copynumber: 3.8 Consensus size: 59
17959833 TTTTAGGGGG
* * *
17959843 TTATT-AAGGCATTTTTTGGCC-AAAACGCCTTTCAATAATCCCCTTCCATTTTTTTTGGA
1 TTATTCAAGGTATTTTTTGGCCAAAAAC-ACTTTCAATAAT-CCCTTCAATTTTTTTTGGA
* * * * *
17959902 TTATTCAAGGTA-TTTTTGACCTAAAACGCTTTCAATAATCCCCTCACATTATTTTTAGGGA
1 TTATTCAAGGTATTTTTTGGCCAAAAACACTTTCAATAATCCCTTCA-ATT-TTTTT-TGGA
*
17959963 TTATTCAAGGTATTTTTTGGCCAAAAACACTTTCAATAATCCCTTCAATTTTTTTT-TA
1 TTATTCAAGGTATTTTTTGGCCAAAAACACTTTCAATAATCCCTTCAATTTTTTTTGGA
* * * * *
17960021 TTATTCAAAG-AGTTTTTGGCCAGAAAATACCTTGAATAATCCCTT
1 TTATTCAAGGTATTTTTTGGCCA-AAAACACTTTCAATAATCCCTT
17960066 ATAAAAAATT
Statistics
Matches: 140, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
57 11 0.08
58 34 0.24
59 27 0.19
60 20 0.14
61 18 0.13
62 30 0.21
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (59 bp):
TTATTCAAGGTATTTTTTGGCCAAAAACACTTTCAATAATCCCTTCAATTTTTTTTGGA
Found at i:17960120 original size:61 final size:61
Alignment explanation
Indices: 17960020--17960194 Score: 160
Period size: 65 Copynumber: 2.8 Consensus size: 61
17960010 ATTTTTTTTT
* * * * *
17960020 ATTATTCAAAGA-GTTTTTGGCCAGAAAATACCTTGAATAATCCCTTATAAAAAATTGAATGGG
1 ATTATTC-AAGATATTTTTGGTCA-AAAATGCCTTGAATAATCCCTTATAAAAAA-TAAAAGGG
*
17960083 -TTATTCAAGGTATTTTTGGTCAAAAATGCCTTGAATAATCCCCTTCAATTAAAAAATAAAAGGG
1 ATTATTCAAGATATTTTTGGTCAAAAATGCCTTGAATAAT-CCCTT--A-TAAAAAATAAAAGGG
* * * *
17960147 ATTATTCAAGATGTTTTCGAT-AAAAATGCAC-TCAATAATCCCTTATAA
1 ATTATTCAAGATATTTTTGGTCAAAAATGC-CTTGAATAATCCCTTATAA
17960195 TTTTTTTGGG
Statistics
Matches: 94, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
60 3 0.03
61 20 0.21
62 20 0.21
63 5 0.05
64 22 0.23
65 24 0.26
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (61 bp):
ATTATTCAAGATATTTTTGGTCAAAAATGCCTTGAATAATCCCTTATAAAAAATAAAAGGG
Found at i:17962940 original size:63 final size:62
Alignment explanation
Indices: 17962794--17962969 Score: 174
Period size: 64 Copynumber: 2.8 Consensus size: 62
17962784 CTCAAAAAAA
* * * * * * **
17962794 TTATAAGGGATTATTGAATGCATTTTT-ATCGAAAACATCTTGAATAATCCCTTTTATTTTT
1 TTATAAGGGATTATTCAAGGCATTTTTGACCAAAAACACCTTGAATAACCCCTTCAATTTTT
* *
17962855 TAATTGAAGGGGATTATTCAAGGCATTTTTGACCAAAAATACCTTGAATAACCCCATTCAATTTT
1 TTA-T-AA-GGGATTATTCAAGGCATTTTTGACCAAAAACACCTTGAATAACCCC-TTCAATTTT
17962920 T
62 T
* * * *
17962921 TTATAAGGGATTATTCAAGGTATTTTCTGGCCAAAAACTCTTTGAATAA
1 TTATAAGGGATTATTCAAGGCATTTT-TGACCAAAAACACCTTGAATAA
17962970 TAAAAAAAAT
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
61 2 0.02
62 1 0.01
63 21 0.23
64 39 0.42
65 20 0.22
66 10 0.11
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (62 bp):
TTATAAGGGATTATTCAAGGCATTTTTGACCAAAAACACCTTGAATAACCCCTTCAATTTTT
Found at i:17963024 original size:186 final size:185
Alignment explanation
Indices: 17962677--17963031 Score: 446
Period size: 186 Copynumber: 1.9 Consensus size: 185
17962667 AAGATGAAGC
* * * * * *
17962677 GGGGATTATTCAAGGGATTTTTGGCTAGAAACGCCTTGAATAACCTCATTCAATTTTTGTAAAGG
1 GGGGATTATTCAAGGCATTTTTGACCAAAAACACCTTGAATAACCCCATTCAATTTTTGTAAAGG
* * *
17962742 ATTATTCAAAGTGTTTTCTAGCAAAAAAATGCCTTGAATAATCTCAAAAAAATTATAAGGGATTA
66 ATTATTCAAAGTATTTTCTAGCAAAAAAATGCCTTGAATAA-CTAAAAAAAATTAGAAGGGATTA
* * * *
17962807 TTGAATGCATTTTTATCGAAAACATCTTGAATAATCCCTTTTATTTTTTAATTGAA
130 TTGAAAGCATTTTTAGCCAAAAAATCTTGAATAATCCCTTTTATTTTTTAATTGAA
* *
17962863 GGGGATTATTCAAGGCATTTTTGACCAAAAATACCTTGAATAACCCCATTCAATTTTTTTATAAG
1 GGGGATTATTCAAGGCATTTTTGACCAAAAACACCTTGAATAACCCCATTCAATTTTTGTA-AA-
* * * * *
17962928 GGATTATTCAAGGTATTTTCTGGCCAAAAACT-CTTTGAATAA-TAAAAAAAATT-GAAGGGATT
64 GGATTATTCAAAGTATTTTCTAGCAAAAAAATGCCTTGAATAACTAAAAAAAATTAGAAGGGATT
* *
17962990 ATTGAAAGCGTTTTTGGCCAAAAAATACCTTGAATAATCCCT
129 ATTGAAAGCATTTTTAGCCAAAAAAT--CTTGAATAATCCCT
17963032 AAAAATAATG
Statistics
Matches: 143, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
184 28 0.20
185 10 0.07
186 67 0.47
187 11 0.08
188 27 0.19
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (185 bp):
GGGGATTATTCAAGGCATTTTTGACCAAAAACACCTTGAATAACCCCATTCAATTTTTGTAAAGG
ATTATTCAAAGTATTTTCTAGCAAAAAAATGCCTTGAATAACTAAAAAAAATTAGAAGGGATTAT
TGAAAGCATTTTTAGCCAAAAAATCTTGAATAATCCCTTTTATTTTTTAATTGAA
Found at i:17963059 original size:62 final size:62
Alignment explanation
Indices: 17962970--17963157 Score: 235
Period size: 62 Copynumber: 3.1 Consensus size: 62
17962960 CTTTGAATAA
*
17962970 TAAAAAAAAT-TGAAGGGATTATTGAAAGCGTTTTTGGCCAAAAAATACCTTGAATAATCCC
1 TAAAAAAAATGTGAGGGGATTATTGAAAGCGTTTTTGGCCAAAAAATACCTTGAATAATCCC
* * *
17963031 TAAAAATAATGTGAGGGGATTATTGAAAGCGTTTTAGGTC-AAAAATACCTTGAATAAT-CC
1 TAAAAAAAATGTGAGGGGATTATTGAAAGCGTTTTTGGCCAAAAAATACCTTGAATAATCCC
* * * *
17963091 -AAAAAAAATG-GAAGGGGATTATTGAAGGCG-TTTTGGCCAAAAAAATGCCTTTAATAACCCCC
1 TAAAAAAAATGTG-AGGGGATTATTGAAAGCGTTTTTGGCC-AAAAAATACCTTGAATAA-TCCC
17963153 TAAAA
1 TAAAA
17963158 TGCCTTGAAT
Statistics
Matches: 109, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
58 7 0.06
59 26 0.24
60 17 0.16
61 27 0.25
62 28 0.26
63 4 0.04
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.27
Consensus pattern (62 bp):
TAAAAAAAATGTGAGGGGATTATTGAAAGCGTTTTTGGCCAAAAAATACCTTGAATAATCCC
Found at i:17963124 original size:59 final size:58
Alignment explanation
Indices: 17962948--17963133 Score: 229
Period size: 61 Copynumber: 3.2 Consensus size: 58
17962938 AGGTATTTTC
* *
17962948 TGGCCAAAAACT-CTTTGAATAAT--AAAAAAAATTGAA-GGGATTATTGAAAGCGTTTT
1 TGGCCAAAAA-TACCTTGAATAATCCAAAAAAAATGGAAGGGGATTATTGAAAGCG-TTT
*
17963004 TGGCCAAAAAATACCTTGAATAATCCCTAAAAATAATGTG-AGGGGATTATTGAAAGCGTTT
1 TGGCC-AAAAATACCTTGAATAAT-CC-AAAAAAAATG-GAAGGGGATTATTGAAAGCGTTT
* *
17963065 TAGGTCAAAAATACCTTGAATAATCCAAAAAAAATGGAAGGGGATTATTGAAGGCGTTT
1 T-GGCCAAAAATACCTTGAATAATCCAAAAAAAATGGAAGGGGATTATTGAAAGCGTTT
17963124 TGGCCAAAAA
1 TGGCCAAAAA
17963134 AATGCCTTTA
Statistics
Matches: 113, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
56 6 0.05
57 15 0.13
58 9 0.08
59 30 0.27
60 2 0.02
61 31 0.27
62 20 0.18
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (58 bp):
TGGCCAAAAATACCTTGAATAATCCAAAAAAAATGGAAGGGGATTATTGAAAGCGTTT
Found at i:17963134 original size:59 final size:59
Alignment explanation
Indices: 17962948--17963134 Score: 233
Period size: 59 Copynumber: 3.2 Consensus size: 59
17962938 AGGTATTTTC
* * *
17962948 TGGCCAAAAACT-CTTTGAATAAT--AAAAAAAATTGAA-GGGATTATTGAAAGCGTTTT
1 TGGCCAAAAAATACCTTGAATAATCCAAAAAAAATGGAAGGGGATTATTGAAAGCG-TTT
*
17963004 TGGCCAAAAAATACCTTGAATAATCCCTAAAAATAATGTG-AGGGGATTATTGAAAGCGTTT
1 TGGCCAAAAAATACCTTGAATAAT-CC-AAAAAAAATG-GAAGGGGATTATTGAAAGCGTTT
* *
17963065 TAGGTC-AAAAATACCTTGAATAATCCAAAAAAAATGGAAGGGGATTATTGAAGGCGTTT
1 T-GGCCAAAAAATACCTTGAATAATCCAAAAAAAATGGAAGGGGATTATTGAAAGCGTTT
17963124 TGGCCAAAAAA
1 TGGCCAAAAAA
17963135 ATGCCTTTAA
Statistics
Matches: 113, Mismatches: 8, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
56 11 0.10
57 10 0.09
58 4 0.04
59 35 0.31
60 2 0.02
61 31 0.27
62 20 0.18
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (59 bp):
TGGCCAAAAAATACCTTGAATAATCCAAAAAAAATGGAAGGGGATTATTGAAAGCGTTT
Found at i:17963158 original size:59 final size:58
Alignment explanation
Indices: 17962975--17963159 Score: 171
Period size: 59 Copynumber: 3.1 Consensus size: 58
17962965 AATAATAAAA
* *
17962975 AAAATTGAA-GGGATTATTGAAAGCGTTTTTGGCCAAAAAATACCTTGAATAA-TCCCT
1 AAAATGGAAGGGGATTATTGAAAGCG-TTTTGGCCAAAAAATACCTTGAATAACCCCCT
* ****
17963032 AAAAATAATGTG-AGGGGATTATTGAAAGCGTTTTAGGTC-AAAAATACCTTGAATAATCCAAAA
1 ---AA-AATG-GAAGGGGATTATTGAAAGCGTTTT-GGCCAAAAAATACCTTGAATAA-CCCCCT
* * *
17963095 AAAATGGAAGGGGATTATTGAAGGCGTTTTGGCCAAAAAAATGCCTTTAATAACCCCCT
1 AAAATGGAAGGGGATTATTGAAAGCGTTTTGGCC-AAAAAATACCTTGAATAACCCCCT
17963154 AAAATG
1 AAAATG
17963160 CCTTGAATAA
Statistics
Matches: 101, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
58 4 0.04
59 33 0.33
60 19 0.19
61 25 0.25
62 20 0.20
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (58 bp):
AAAATGGAAGGGGATTATTGAAAGCGTTTTGGCCAAAAAATACCTTGAATAACCCCCT
Found at i:17966162 original size:23 final size:22
Alignment explanation
Indices: 17966130--17966172 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
17966120 TCTATTATTT
* *
17966130 CTTTTTTTCTTTTTTTTTTACA
1 CTTTTTTTCTTCTTCTTTTACA
17966152 CTTTTTCTTCTTCTTCTTTTA
1 CTTTTT-TTCTTCTTCTTTTA
17966173 TTTTTTTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (22 bp):
CTTTTTTTCTTCTTCTTTTACA
Found at i:17967335 original size:40 final size:40
Alignment explanation
Indices: 17967277--17967351 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 40
17967267 CCATATGAAG
*
17967277 GATTTTGAGTTTGCTTTTTTTGTTCATCCTCCTCAGTAGA
1 GATTTTGAGGTTGCTTTTTTTGTTCATCCTCCTCAGTAGA
17967317 GATTTTG-GGTTGCTTTTTTTGTTCATCCTCCTCAG
1 GATTTTGAGGTTGCTTTTTTTGTTCATCCTCCTCAG
17967352 CAAAAAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
39 27 0.79
40 7 0.21
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.51
Consensus pattern (40 bp):
GATTTTGAGGTTGCTTTTTTTGTTCATCCTCCTCAGTAGA
Found at i:17970373 original size:22 final size:21
Alignment explanation
Indices: 17970323--17970374 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
17970313 TGATCTTATA
17970323 GATAGGATTATAAAGTCTTAG
1 GATAGGATTATAAAGTCTTAG
* *
17970344 GATCAGGATTATAAGGTTTTAG
1 GAT-AGGATTATAAAGTCTTAG
17970366 GAATAGGAT
1 G-ATAGGAT
17970375 CCTTAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 3 0.11
22 22 0.81
23 2 0.07
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (21 bp):
GATAGGATTATAAAGTCTTAG
Found at i:17973805 original size:3 final size:3
Alignment explanation
Indices: 17973799--17973848 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
17973789 TTATTATTAT
17973799 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
17973847 TA
1 TA
17973849 TTATTATTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:17973853 original size:3 final size:3
Alignment explanation
Indices: 17973847--17973898 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
17973837 CTACTACTAC
*
17973847 TAT TAT TAT TAT TAT TAT TAC TAT TAT TA- TAT T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17973893 TAT TAT
1 TAT TAT
17973899 GAAATTTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:17973905 original size:25 final size:25
Alignment explanation
Indices: 17973855--17973905 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
17973845 ACTATTATTA
* *
17973855 TTATTATTATTACTATTATTATATT
1 TTATTATTATTACTATTATGAAATT
*
17973880 TTATTATTATTATTATTATGAAATT
1 TTATTATTATTACTATTATGAAATT
17973905 T
1 T
17973906 AAAATTATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
TTATTATTATTACTATTATGAAATT
Found at i:17976957 original size:126 final size:124
Alignment explanation
Indices: 17976782--17977072 Score: 298
Period size: 126 Copynumber: 2.3 Consensus size: 124
17976772 GATTCAGCTA
** * * * * *
17976782 AAAAAACTTATGAATCTTGCTGGATAATTTAAAGACTATGACCGGAGGTCATT-CAAATCTCGAC
1 AAAAAACTTATGAATCTTGCTCAAAAACTTAAAAACTATGACCGAAGGTC-TTACAAATCTCAAC
* * * *
17976846 AT-TCATAAATGCTCCTCTAAAAAGAGGCTTTGAAACTTTAAAAGTTTAAAATATTCTTCCT
65 ATCT-ATAAATGCTCCTCTAAAAAAAGGCCTTGAAACTTTAAAAATTTAAAACATT-TTCCT
** *
17976907 AAAAAACTTATGAATCTTGCTCAAAAGACTTAAAAACTATGTTCGAAGGTCTTACAAATTTCAAC
1 AAAAAACTTATGAATCTTGCTCAAAA-ACTTAAAAACTATGACCGAAGGTCTTACAAATCTCAAC
* ** *
17976972 ATCTATGAATGCTTTTCTAAAAAAAGGCCTTGAAACTTTAAAAATTTAAAACATTTTGCT
65 ATCTATAAATGCTCCTCTAAAAAAAGGCCTTGAAACTTTAAAAATTTAAAACATTTTCCT
* * * * * * *
17977032 AAAAGATTTAAGAATCTGGCCTGAAAAACTTAGAGACTATG
1 AAAAAACTTATGAATCTTG-CTCAAAAACTTAAAAACTATG
17977073 CCTTGAGATC
Statistics
Matches: 137, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
125 56 0.41
126 80 0.58
127 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (124 bp):
AAAAAACTTATGAATCTTGCTCAAAAACTTAAAAACTATGACCGAAGGTCTTACAAATCTCAACA
TCTATAAATGCTCCTCTAAAAAAAGGCCTTGAAACTTTAAAAATTTAAAACATTTTCCT
Found at i:17977108 original size:125 final size:126
Alignment explanation
Indices: 17976852--17977139 Score: 268
Period size: 125 Copynumber: 2.3 Consensus size: 126
17976842 CGACATTCAT
* * * *
17976852 AAATGCTCCTCTAAAAAGAGGCTTTGAAACTTTAAAAGTTTAAAATATTCTTCCTAAAAAACTTA
1 AAATGCTCCTCTAAAAAAAGGCCTTGAAACTTTAAAAATTTAAAACATTCTTCCTAAAAAACTTA
* * * * *
17976917 TGAATCTTGCTCAAAAGACTTAAAAACTATGTTCGAAGGTCTTACAAATTTCAACATCTAT
66 AGAATCTGGCTCAAAAGACTTAAAAACTATGTTCGAAGATCGTACAAATTTCAACATCTAC
* ** * * *
17976978 GAATGCTTTTCTAAAAAAAGGCCTTGAAACTTTAAAAATTTAAAACATT-TTGCTAAAAGATTTA
1 AAATGCTCCTCTAAAAAAAGGCCTTGAAACTTTAAAAATTTAAAACATTCTTCCTAAAAAACTTA
* * * * *
17977042 AGAATCTGGCCTGAAAA-ACTTAGAGACTATGCCTT-G-AGATCGTACAAATCTT-AATATTTAC
66 AGAATCTGG-CTCAAAAGACTTAAAAACTATG--TTCGAAGATCGTACAAAT-TTCAACATCTAC
* * *
17977103 AAATGCT-CT-T-AAAAGAGGCTTTTGGAACTTTAAAAAT
1 AAATGCTCCTCTAAAAAAAGGC-CTTGAAACTTTAAAAAT
17977140 GTCATCATTT
Statistics
Matches: 132, Mismatches: 25, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
122 8 0.06
123 16 0.12
124 1 0.01
125 54 0.41
126 51 0.39
127 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (126 bp):
AAATGCTCCTCTAAAAAAAGGCCTTGAAACTTTAAAAATTTAAAACATTCTTCCTAAAAAACTTA
AGAATCTGGCTCAAAAGACTTAAAAACTATGTTCGAAGATCGTACAAATTTCAACATCTAC
Found at i:17979657 original size:22 final size:21
Alignment explanation
Indices: 17979609--17979657 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
17979599 TACTGGTCTG
*
17979609 TCTTTTATTTTTTATCTTGAT
1 TCTTTTATTTTTTATCCTGAT
*
17979630 TTTTTTAGTTTTTTATTCCTG-T
1 TCTTTTA-TTTTTTA-TCCTGAT
17979652 TCTTTT
1 TCTTTT
17979658 CAATTTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.26
22 13 0.57
23 4 0.17
ACGTcount: A:0.10, C:0.10, G:0.06, T:0.73
Consensus pattern (21 bp):
TCTTTTATTTTTTATCCTGAT
Found at i:17985020 original size:17 final size:17
Alignment explanation
Indices: 17984998--17985038 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
17984988 CATTTTAAGA
17984998 GGTTTT-GAATTTTAGG
1 GGTTTTAGAATTTTAGG
*
17985014 GGATTTTAGATTTTTAGG
1 GG-TTTTAGAATTTTAGG
17985032 GGTTTTA
1 GGTTTTA
17985039 AAAACTTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 9 0.41
18 11 0.50
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (17 bp):
GGTTTTAGAATTTTAGG
Found at i:17986447 original size:15 final size:14
Alignment explanation
Indices: 17986410--17986469 Score: 59
Period size: 15 Copynumber: 4.2 Consensus size: 14
17986400 GCCATCATCA
*
17986410 ATTATTTTTCTTTTT
1 ATTATTTTT-TTTGT
* *
17986425 TTTGTTTTTTTTGT
1 ATTATTTTTTTTGT
*
17986439 ATTA-TTTTTTGGT
1 ATTATTTTTTTTGT
17986452 ATTTATTTTTTTTGT
1 A-TTATTTTTTTTGT
17986467 ATT
1 ATT
17986470 TCGTATAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
13 9 0.25
14 11 0.31
15 16 0.44
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (14 bp):
ATTATTTTTTTTGT
Found at i:17986786 original size:87 final size:87
Alignment explanation
Indices: 17986617--17986882 Score: 335
Period size: 88 Copynumber: 3.0 Consensus size: 87
17986607 TTTTAAACAA
* * * *
17986617 AATA-ATTGGGATAACACCGCAAGTTAAAAAAATAATA-AATCGATTGAGATAACACACGTGAAT
1 AATAGATTGGGATAACACCGCAAG-TCAAAAGATAA-AGAATCGATTGGGATAACAC-CGCGAAT
*
17986680 CGAAATTATGCCCGGAGGTCTTACAG
63 CGAAATTATG-CCGAAGGTCTTACAG
* *
17986706 AATAGATTGGGATAACATCGC-AGTCAAAAGATAAAGAATCGATCGGGATAACACCGCGAATCGA
1 AATAGATTGGGATAACACCGCAAGTCAAAAGATAAAGAATCGATTGGGATAACACCGCGAATCGA
*
17986770 AATTATGTCCGAAGGTCTTACAA
66 AATTATG-CCGAAGGTCTTACAG
* * *
17986793 AATCGATTGGGATAACACCGCTAGTCAAAAGAT-AAGAAATCGATTGGGATAACACTGCGAATCG
1 AATAGATTGGGATAACACCGCAAGTCAAAAGATAAAG-AATCGATTGGGATAACACCGCGAATCG
17986857 AAATTATGCTCGAAGGTCTTA-AG
65 AAATTATGC-CGAAGGTCTTACAG
17986880 AAT
1 AAT
17986883 CATACCCGGA
Statistics
Matches: 158, Mismatches: 14, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
87 57 0.36
88 80 0.51
89 6 0.04
90 15 0.09
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (87 bp):
AATAGATTGGGATAACACCGCAAGTCAAAAGATAAAGAATCGATTGGGATAACACCGCGAATCGA
AATTATGCCGAAGGTCTTACAG
Found at i:17987129 original size:22 final size:22
Alignment explanation
Indices: 17987098--17987141 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17987088 ACCGCGAATC
* *
17987098 GAAATGATGCTCGGAGGTCTTA
1 GAAATCATGCCCGGAGGTCTTA
17987120 GAAATCATGCCCGGAGGTCTTA
1 GAAATCATGCCCGGAGGTCTTA
17987142 CAGAATTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (22 bp):
GAAATCATGCCCGGAGGTCTTA
Found at i:17987250 original size:109 final size:110
Alignment explanation
Indices: 17986890--17987250 Score: 428
Period size: 109 Copynumber: 3.3 Consensus size: 110
17986880 AATCATACCC
* *
17986890 GGAGGTCATATAG-AATCATG-TCTGGAGGTCTTACAGAATCGA-TCGGAATAACATCGTAAGTC
1 GGAGGTC-T-TAGAAATCATGCTC-GGAGGTCTTACAGAATAGACTCAG-ATAACATCGTAAGTC
* *
17986952 AAAAGATAAGGAATCGATCGGGATAACACCACGAATTGAAATTATGCCT
62 AAAAGATAAGGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCT
* * * * * *
17987001 GGAGGTCTTAAAAATCGTGCTTGGAGGTCTTACAGGATAGACTGAGATAACATCG-CAGTCAAAA
1 GGAGGTCTTAGAAATCATGCTCGGAGGTCTTACAGAATAGACTCAGATAACATCGTAAGTCAAAA
* * *
17987065 GATAAGGAATCGATCAGAATAACACCGCGAATCGAAATGATG-CT
66 GATAAGGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCT
* * *
17987109 CGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATTGACTCAGATAACATCGTAAGTCAGA
1 -GGAGGTCTTAGAAATCATGCTCGGAGGTCTTACAGAATAGACTCAGATAACATCGTAAGTCAAA
* * *
17987174 A-ATAAAGAATCGATCGGGACAACACCGTGAATCGAAATTATGCCT
65 AGATAAGGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCT
* * * *
17987219 AGAAGTCTTAGAAATCATGCTCGAAGATCTTA
1 GGAGGTCTTAGAAATCATGCTCGGAGGTCTTA
17987251 AGATTCATGT
Statistics
Matches: 211, Mismatches: 33, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
108 2 0.01
109 157 0.74
110 42 0.20
111 10 0.05
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (110 bp):
GGAGGTCTTAGAAATCATGCTCGGAGGTCTTACAGAATAGACTCAGATAACATCGTAAGTCAAAA
GATAAGGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCT
Done.