Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 59 of 325
Found at i:18057661 original size:40 final size:40
Alignment explanation
Indices: 18057607--18057724 Score: 200
Period size: 40 Copynumber: 3.0 Consensus size: 40
18057597 CGAATGTAAC
* *
18057607 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
18057647 AACCCGCACGAATGCCTTCGGGACTTAACCCAGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
18057687 AACCCGCACGAATACCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
18057725 TTTTTTTTTC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:18060210 original size:10 final size:10
Alignment explanation
Indices: 18060180--18060237 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 10
18060170 TTAAATTCTA
*
18060180 AAAGATAAAT
1 AAAGATAATT
18060190 ACAA-ATAATT
1 A-AAGATAATT
*
18060200 AAAGATTATT
1 AAAGATAATT
18060210 AAAGATAATT
1 AAAGATAATT
*
18060220 AAAGATAAAT
1 AAAGATAATT
*
18060230 AAAAATAA
1 AAAGATAA
18060238 ATCCTAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
9 2 0.05
10 37 0.90
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (10 bp):
AAAGATAATT
Found at i:18060237 original size:20 final size:20
Alignment explanation
Indices: 18060180--18060237 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
18060170 TTAAATTCTA
*
18060180 AAAGATAAATACAAATAATT
1 AAAGATAAATAAAAATAATT
* * *
18060200 AAAGATTATTAAAGATAATT
1 AAAGATAAATAAAAATAATT
18060220 AAAGATAAATAAAAATAA
1 AAAGATAAATAAAAATAA
18060238 ATCCTAAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:18060289 original size:14 final size:13
Alignment explanation
Indices: 18060253--18060290 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
18060243 AAATTTAAAT
18060253 CTAAATAATTATC
1 CTAAATAATTATC
*
18060266 CTTAATAATTATC
1 CTAAATAATTATC
18060279 CTAATATAATTA
1 CTAA-ATAATTA
18060291 AATATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:18061224 original size:14 final size:14
Alignment explanation
Indices: 18061183--18061229 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
18061173 AATAATTAAG
* *
18061183 TAATTTGTTCATTT
1 TAATTTATTCTTTT
*
18061197 TAAGTT-TT-TTTT
1 TAATTTATTCTTTT
18061209 TAATTTATTCTTTT
1 TAATTTATTCTTTT
18061223 TAATTTA
1 TAATTTA
18061230 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 8 0.29
13 4 0.14
14 16 0.57
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.68
Consensus pattern (14 bp):
TAATTTATTCTTTT
Found at i:18065017 original size:21 final size:21
Alignment explanation
Indices: 18064971--18065017 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
18064961 AATTTTTTTA
18064971 AATTTAACTCGACTTGAATTT
1 AATTTAACTCGACTTGAATTT
* * *
18064992 TATTTCACTCGATTTG-ATTT
1 AATTTAACTCGACTTGAATTT
18065012 GAATTT
1 -AATTT
18065018 TTTTAAAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.49
Consensus pattern (21 bp):
AATTTAACTCGACTTGAATTT
Found at i:18068319 original size:69 final size:69
Alignment explanation
Indices: 18068237--18068373 Score: 229
Period size: 69 Copynumber: 2.0 Consensus size: 69
18068227 TATGTTCACG
* * *
18068237 AATCATGTTTTGAGTGTATATTTAAGTAAAGGAAGCTTTATTCTATGCAAACCGTACTGTGTGGG
1 AATCATGTTTTGAGTGCATATTTAAGTAAAGGAAGCTTTATTCTATGCAAACCGAACTATGTGGG
18068302 ATCA
66 ATCA
* *
18068306 AATCATGTTTTGAGTGCATATTTAAGTTAGGGAAGCTTTATTCTATGCAAACCGAACTATGTGGG
1 AATCATGTTTTGAGTGCATATTTAAGTAAAGGAAGCTTTATTCTATGCAAACCGAACTATGTGGG
18068371 ATC
66 ATC
18068374 TCATCCCTCG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (69 bp):
AATCATGTTTTGAGTGCATATTTAAGTAAAGGAAGCTTTATTCTATGCAAACCGAACTATGTGGG
ATCA
Found at i:18068659 original size:29 final size:29
Alignment explanation
Indices: 18068627--18068685 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
18068617 TTCTATATTT
18068627 ACAAATTCTAAAATTATTAAAAATGAAGC
1 ACAAATTCTAAAATTATTAAAAATGAAGC
18068656 ACAAATTCTAAAATTATTAAAAATGAAGC
1 ACAAATTCTAAAATTATTAAAAATGAAGC
18068685 A
1 A
18068686 TTCATATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.27
Consensus pattern (29 bp):
ACAAATTCTAAAATTATTAAAAATGAAGC
Found at i:18071260 original size:25 final size:25
Alignment explanation
Indices: 18071230--18071283 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
18071220 ATACACTCTT
*
18071230 TTATTTTCTTTTATTATA-AATATTA
1 TTATTTTATTTTATT-TACAATATTA
* *
18071255 TTATTTTATTTTCTTTACATTATTA
1 TTATTTTATTTTATTTACAATATTA
18071280 TTAT
1 TTAT
18071284 ATCGTATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (25 bp):
TTATTTTATTTTATTTACAATATTA
Found at i:18071366 original size:24 final size:24
Alignment explanation
Indices: 18071329--18071391 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
18071319 TCATGTACAC
*
18071329 ATTATT-TATATTATTTTCA-TGATT
1 ATTATTGTAT-TTATTTTCACT-ACT
* *
18071353 ATTATTGTGTTTATTTTTACTACT
1 ATTATTGTATTTATTTTCACTACT
18071377 ATTATTGTATTTATT
1 ATTATTGTATTTATT
18071392 ATTAGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTATTGTATTTATTTTCACTACT
Found at i:18071406 original size:24 final size:24
Alignment explanation
Indices: 18071350--18071406 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
18071340 TATTTTCATG
* *
18071350 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
18071374 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
18071398 ATTAGTATT
1 ATTATTATT
18071407 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:18071634 original size:16 final size:16
Alignment explanation
Indices: 18071590--18071650 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
18071580 TTCTAATGTG
18071590 TATGTAT-TATATATAT
1 TATGTATATAT-TATAT
* *
18071606 T-TTTA-ATACTATAT
1 TATGTATATATTATAT
18071620 TATGTATATATTATAT
1 TATGTATATATTATAT
*
18071636 TATATATATAGTTAT
1 TATGTATATA-TTAT
18071651 TATATTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
14 6 0.17
15 8 0.22
16 18 0.50
17 4 0.11
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (16 bp):
TATGTATATATTATAT
Found at i:18071638 original size:39 final size:39
Alignment explanation
Indices: 18071594--18071670 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
18071584 AATGTGTATG
**
18071594 TATTATATATATTTTTAATACTA-TATTATGTATATATTA
1 TATTATATATATAGTTAATA-TATTATTATGTATATATTA
* *
18071633 TATTATATATATAGTTATTATATTTTTATGTATATATT
1 TATTATATATATAGTTAATATATTATTATGTATATATT
18071671 TTTAATATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 31 0.94
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (39 bp):
TATTATATATATAGTTAATATATTATTATGTATATATTA
Found at i:18071661 original size:23 final size:23
Alignment explanation
Indices: 18071594--18071670 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 23
18071584 AATGTGTATG
18071594 TATTATATATATTTTTA-ATACTA
1 TATTATATATATTTTTATATA-TA
18071617 TATTATGTATATATTATATTATATATA
1 TATTA--TATATATT-T-TTATATATA
*
18071644 TAGTTAT-TATATTTTTATGTATA
1 TA-TTATATATATTTTTATATATA
18071667 TATT
1 TATT
18071671 TTTAATATCA
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
22 2 0.04
23 15 0.32
24 1 0.02
25 14 0.30
26 2 0.04
27 7 0.15
28 6 0.13
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (23 bp):
TATTATATATATTTTTATATATA
Found at i:18071678 original size:23 final size:23
Alignment explanation
Indices: 18071596--18071668 Score: 60
Period size: 25 Copynumber: 3.0 Consensus size: 23
18071586 TGTGTATGTA
18071596 TTATATATATTTTTA-ATACTATA-
1 TTAT-TATATTTTTATATA-TATAG
18071619 TTATGTATATATTATATTATATATATAG
1 TTA--T-TATATT-T-TTATATATATAG
*
18071647 TTATTATATTTTTATGTATATA
1 TTATTATATTTTTATATATATA
18071669 TTTTTAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
23 13 0.30
24 1 0.02
25 14 0.33
26 2 0.05
27 7 0.16
28 6 0.14
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATTATATTTTTATATATATAG
Found at i:18071881 original size:3 final size:3
Alignment explanation
Indices: 18071873--18071921 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
18071863 TTCTACGTTG
* *
18071873 TAT TAT TAT TAAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TTT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18071919 TAT
1 TAT
18071922 CATTGTTTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18084190 original size:44 final size:44
Alignment explanation
Indices: 18084041--18084697 Score: 907
Period size: 44 Copynumber: 15.2 Consensus size: 44
18084031 TCCTTGAAAC
*
18084041 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGATAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18084085 AGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* **
18084125 AGAT----GATTTGGCATCTCTGTAGCGGTAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18084165 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* **
18084209 AGATAACAGATTTGGCATCTCTGTAGAAGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18084253 AGATAACAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAA
1 AGATAAC-AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18084298 AGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * *
18084338 AAATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAACAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18084382 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18084426 AGATAACAAAATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAAC-AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
18084471 AGAT----GATTTGGCATCTCTGTAGAGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
18084511 AAATAACAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
18084555 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGTGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
18084599 AGATAACAGATTTGGCGTCT-TCGTAGCGGCAGAGAGAAGATCGA
1 AGATAACAGATTTGGCGTCTCT-GTAGCGGCGGAGAGCAGATCGA
* **
18084643 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATAAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18084687 AAATAACAGAT
1 AGATAACAGAT
18084698 CGGTGTTCCT
Statistics
Matches: 551, Mismatches: 46, Indels: 32
0.88 0.07 0.05
Matches are distributed among these distances:
40 149 0.27
43 1 0.00
44 324 0.59
45 77 0.14
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.21
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:18084331 original size:173 final size:172
Alignment explanation
Indices: 18084041--18084697 Score: 1000
Period size: 173 Copynumber: 3.8 Consensus size: 172
18084031 TCCTTGAAAC
* * *
18084041 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGATAGCAGATCGAAGAT----GATTTGGCATCTC
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
* *
18084102 TGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGTAGAGAGCAGATCGAAG
66 TGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAA
18084167 ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
131 ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
**
18084209 AGATAACAGATTTGGCATCTCTGTAGAAGCGGAGAGCAGATCGAAGATAACAAGATTTGGCGTCT
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC-AGATTTGGCGTCT
* *
18084274 CTGTAGCGGCGGAGAGCAGATCAAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAA
65 CTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAA
* *
18084339 AATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAACAGATCGA
130 AATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
*
18084382 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAAATTTGGCGTCT
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC-AGATTTGGCGTCT
* *
18084447 CTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGAGGCGGAGAGCAGATCGAA
65 CTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAA
* *
18084512 AATAACAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGA
130 AATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
* * *
18084555 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGTGCAGATCGAAGATAACAGATTTGGCGTCT-
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
* * *
18084619 TCGTAGCGGCAGAGAGAAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGAT
66 T-GTAGCGGCGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGCAGAGAGCAGAT
**
18084684 AAAAAATAACAGAT
126 CGAAAATAACAGAT
18084698 CGGTGTTCCT
Statistics
Matches: 448, Mismatches: 31, Indels: 12
0.91 0.06 0.02
Matches are distributed among these distances:
168 44 0.10
171 1 0.00
172 36 0.08
173 325 0.73
176 42 0.09
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.21
Consensus pattern (172 bp):
AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
TGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAA
ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
Found at i:18084431 original size:217 final size:215
Alignment explanation
Indices: 18084041--18084697 Score: 954
Period size: 217 Copynumber: 3.1 Consensus size: 215
18084031 TCCTTGAAAC
* *
18084041 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGATAGCAGATCGAAGATGATTTGGCATCTCTGTA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATGATTTGGCATCTCTGTA
* *
18084106 GCGGCGGAGAGCAGATCGAAGAT---GATTTGGCATCTCTGTAGCGGTAGAGAGCAGATCGAAGA
66 GCGGCGGAGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGA
* *
18084168 TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGAAGATAACAGATTTGGCATCTCTGT
131 TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGT
**
18084233 AGAAGCGGAGAGCAGATCGA
196 AGCGGCGGAGAGCAGATCGA
18084253 AGATAACAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATGATTTGGCATCTCTGT
1 AGATAAC-AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATGATTTGGCATCTCTGT
* *
18084318 AGCGGCGGAGAGCAGATCGAAAATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAACAGATCGAA
65 AGCGGCGGAGAGCAGATCGAAGATA-CAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAA
* *
18084383 GATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAAATTTGGCGTCTC
129 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC-AGATTTGGCGTCTC
18084448 TGTAGCGGCGGAGAGCAGATCGA
193 TGTAGCGGCGGAGAGCAGATCGA
* * *
18084471 AGAT----GATTTGGCATCTCTGTAGAGGCGGAGAGCAGATCGAAA-ATAACAGATTTGGCGTCT
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATC-AAAGAT----GATTTGGCATCT
* *
18084531 CTGTAGCGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGTGCAGAT
61 CTGTAGCGGCGGAGAGCAGATCGAAGAT-ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGAT
* *
18084596 CGAAGATAACAGATTTGGCGTCT-TCGTAGCGGCAGAGAGAAGATCGAAGATAACAGATTTGGCG
125 CGAAGATAACAGATTTGGCGTCTCT-GTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCG
* **
18084660 TCTCTGTAGCGGCAGAGAGCAGATAAA
189 TCTCTGTAGCGGCGGAGAGCAGATCGA
*
18084687 AAATAACAGAT
1 AGATAACAGAT
18084698 CGGTGTTCCT
Statistics
Matches: 401, Mismatches: 27, Indels: 26
0.88 0.06 0.06
Matches are distributed among these distances:
212 7 0.02
213 112 0.28
214 3 0.01
216 37 0.09
217 201 0.50
218 38 0.09
220 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.21
Consensus pattern (215 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATGATTTGGCATCTCTGTA
GCGGCGGAGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGA
TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGT
AGCGGCGGAGAGCAGATCGA
Found at i:18085507 original size:13 final size:13
Alignment explanation
Indices: 18085489--18085521 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
18085479 TGAAATTTTC
18085489 ACGGTGGCCGGCG
1 ACGGTGGCCGGCG
18085502 ACGGTGGCCGGCG
1 ACGGTGGCCGGCG
*
18085515 GCGGTGG
1 ACGGTGG
18085522 ATGGCGGCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.27, G:0.58, T:0.09
Consensus pattern (13 bp):
ACGGTGGCCGGCG
Found at i:18086298 original size:24 final size:24
Alignment explanation
Indices: 18086242--18086298 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
18086232 TATTTTCATG
* * *
18086242 ATTATTATTGTGTTTATTTTTACT
1 ATTACTATTGTATTTATTATTACT
* *
18086266 ACTACTATTGTATTTATTATTAGT
1 ATTACTATTGTATTTATTATTACT
*
18086290 ATTAGTATT
1 ATTACTATT
18086299 ATAATTACTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (24 bp):
ATTACTATTGTATTTATTATTACT
Found at i:18086424 original size:12 final size:12
Alignment explanation
Indices: 18086407--18086438 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
18086397 TATTTTTAAC
18086407 ATATATATGTAT
1 ATATATATGTAT
18086419 ATATATATGTAT
1 ATATATATGTAT
*
18086431 GTATATAT
1 ATATATAT
18086439 ATTTATGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:18086426 original size:14 final size:14
Alignment explanation
Indices: 18086407--18086445 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
18086397 TATTTTTAAC
18086407 ATATATATGTATAT
1 ATATATATGTATAT
18086421 ATATATGTATGTATAT
1 ATATA--TATGTATAT
*
18086437 ATATTTATG
1 ATATATATG
18086446 AAGTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (14 bp):
ATATATATGTATAT
Found at i:18086524 original size:23 final size:23
Alignment explanation
Indices: 18086498--18086574 Score: 86
Period size: 23 Copynumber: 3.2 Consensus size: 23
18086488 AATGTGTATG
18086498 TATTATATATATTTTTA-ATACTA
1 TATTATATATATTTTTATATA-TA
18086521 TATTATGTATATATTATTATATATATA
1 TATTA--TATATATT-TT-TATATATA
18086548 TAGTTAT-TATATTTTTATATATA
1 TA-TTATATATATTTTTATATATA
18086571 TATT
1 TATT
18086575 TTTAATATCA
Statistics
Matches: 48, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
22 2 0.04
23 15 0.31
24 2 0.04
25 14 0.29
26 3 0.06
27 6 0.12
28 6 0.12
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTTTTATATATA
Found at i:18086535 original size:11 final size:10
Alignment explanation
Indices: 18086519--18086574 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 10
18086509 TTTTTAATAC
18086519 TATATTATGTA
1 TATATTAT-TA
18086530 TATATTATTA
1 TATATTATTA
18086540 TATA-TA-TA
1 TATATTATTA
*
18086548 TA-GTTATTA
1 TATATTATTA
18086557 TAT-TT-TTA
1 TATATTATTA
18086565 TATATATATT
1 TATAT-TATT
18086575 TTTAATATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
8 12 0.32
9 9 0.24
10 7 0.18
11 10 0.26
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (10 bp):
TATATTATTA
Found at i:18086538 original size:14 final size:14
Alignment explanation
Indices: 18086501--18086596 Score: 66
Period size: 14 Copynumber: 7.2 Consensus size: 14
18086491 GTGTATGTAT
18086501 TATATATATT-TT-
1 TATATATATTATTA
18086513 TA-ATACTA-TATTA
1 TATATA-TATTATTA
*
18086526 TGTATATATTATTA
1 TATATATATTATTA
18086540 TATATATA-TAGTTA
1 TATATATATTA-TTA
18086554 T-TATAT-TT-TTA
1 TATATATATTATTA
*
18086565 TATATATATTTTTA
1 TATATATATTATTA
*
18086579 -ATATCACATTATTCA
1 TATAT-ATATTATT-A
18086594 TAT
1 TAT
18086597 GTTTTTTTAT
Statistics
Matches: 67, Mismatches: 4, Indels: 22
0.72 0.04 0.24
Matches are distributed among these distances:
11 8 0.12
12 11 0.16
13 17 0.25
14 28 0.42
15 1 0.01
16 2 0.03
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (14 bp):
TATATATATTATTA
Found at i:18086549 original size:27 final size:26
Alignment explanation
Indices: 18086503--18086573 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
18086493 GTATGTATTA
18086503 TATATATTTT-TA-ATACTATA-TTAT
1 TATATATTTTATATATA-TATAGTTAT
18086527 GTATATATTATTATATATATATAGTTAT
1 -TATATATT-TTATATATATATAGTTAT
18086555 TATAT-TTTTATATATATAT
1 TATATATTTTATATATATAT
18086574 TTTTAATATC
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
25 20 0.48
26 4 0.10
27 11 0.26
28 7 0.17
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (26 bp):
TATATATTTTATATATATATAGTTAT
Found at i:18086556 original size:17 final size:16
Alignment explanation
Indices: 18086528--18086559 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
18086518 CTATATTATG
18086528 TATATATTATTATATA
1 TATATATTATTATATA
18086544 TATATAGTTATTATAT
1 TATATA-TTATTATAT
18086560 TTTTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TATATATTATTATATA
Found at i:18086783 original size:3 final size:3
Alignment explanation
Indices: 18086775--18086823 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
18086765 TTCTACGTTG
* *
18086775 TAT TAT TAT TAT TAAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TTT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18086821 TAT
1 TAT
18086824 CATTGTTTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18087366 original size:133 final size:133
Alignment explanation
Indices: 18087126--18087366 Score: 347
Period size: 133 Copynumber: 1.8 Consensus size: 133
18087116 AACGGAGACG
* * * *
18087126 ATGTTCGATGTTTAGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTTGTTTGC
1 ATGTTCGACGTTCAGCAATTCAGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGC
* * * * **
18087191 CCAAAATAATCGGATGTCTCTTTAGAATTTCGTTCATGTTTTCTAAAAACTTTTTAAATACGAAG
66 CCAAAATAATCGAATATCCCTTTAGAATTTCATTCACATTTTCTAAAAACTTTTTAAATACGAAG
18087256 GAA
131 GAA
* * *
18087259 ATGTTCGACGTTCGGCAATTCAGGGAATCGTGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGT
1 ATGTTCGACGTTCAGCAATTCAGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGC
* *
18087324 GCAAAATAATCGAATATCCCTTTGGAATTTCATTCACATTTTC
66 CCAAAATAATCGAATATCCCTTTAGAATTTCATTCACATTTTC
18087367 CAAAGCGAGA
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
133 93 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (133 bp):
ATGTTCGACGTTCAGCAATTCAGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGC
CCAAAATAATCGAATATCCCTTTAGAATTTCATTCACATTTTCTAAAAACTTTTTAAATACGAAG
GAA
Found at i:18090823 original size:7 final size:6
Alignment explanation
Indices: 18090802--18090836 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
18090792 CAAAGATTCA
18090802 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
18090837 GTTAAAGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:18090823 original size:12 final size:13
Alignment explanation
Indices: 18090801--18090836 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
18090791 GCAAAGATTC
18090801 AAAAAAT-AAAAT
1 AAAAAATAAAAAT
18090813 -AAAAATAAAAAT
1 AAAAAATAAAAAT
18090825 AAAAAATAAAAA
1 AAAAAATAAAAA
18090837 GTTAAAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.27
12 5 0.23
13 11 0.50
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:18094570 original size:12 final size:12
Alignment explanation
Indices: 18094553--18094584 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
18094543 AAAAAATAAT
18094553 ATAATATTTATA
1 ATAATATTTATA
18094565 ATAATATTTATA
1 ATAATATTTATA
18094577 ATATATAT
1 ATA-ATAT
18094585 AACCTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATAATATTTATA
Found at i:18094735 original size:21 final size:20
Alignment explanation
Indices: 18094711--18094749 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
18094701 AAAAAAAAGC
18094711 TATAATATTTTTATGAATAAA
1 TATAATATTTTTAT-AATAAA
*
18094732 TATATTATTTTTATAATA
1 TATAATATTTTTATAATA
18094750 TATAGCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TATAATATTTTTATAATAAA
Found at i:18095556 original size:14 final size:15
Alignment explanation
Indices: 18095537--18095569 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18095527 ATTAAATAAA
18095537 AATTCAAATTG-ATT
1 AATTCAAATTGAATT
*
18095551 AATTCAACTTGAATT
1 AATTCAAATTGAATT
18095566 AATT
1 AATT
18095570 ACGGAGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (15 bp):
AATTCAAATTGAATT
Found at i:18101054 original size:32 final size:32
Alignment explanation
Indices: 18101013--18101075 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
18101003 ACTCTACGAG
18101013 TTAGATTTTGGAAAGGGTTTTTTTCTCGTGCT
1 TTAGATTTTGGAAAGGGTTTTTTTCTCGTGCT
18101045 TTAGATTTTGGAAAGGGTTTTTTTCTCGTGC
1 TTAGATTTTGGAAAGGGTTTTTTTCTCGTGC
18101076 AATATGTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.16, C:0.10, G:0.25, T:0.49
Consensus pattern (32 bp):
TTAGATTTTGGAAAGGGTTTTTTTCTCGTGCT
Found at i:18102836 original size:30 final size:30
Alignment explanation
Indices: 18102772--18102835 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
18102762 GTCAATATTC
18102772 AAAAATATATGAGTTACTTTTAATAATTAT
1 AAAAATATATGAGTTACTTTTAATAATTAT
* * *
18102802 AAAAATATCTGTA-TTATTTTTAA-AATTTT
1 AAAAATATATG-AGTTACTTTTAATAATTAT
18102831 AAAAA
1 AAAAA
18102836 AAATTAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 10 0.33
30 19 0.63
31 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (30 bp):
AAAAATATATGAGTTACTTTTAATAATTAT
Found at i:18107147 original size:18 final size:18
Alignment explanation
Indices: 18107124--18107159 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
18107114 GACTACTGGC
18107124 AAAATAT-TTATAAAATTA
1 AAAATATGTT-TAAAATTA
18107142 AAAATATGTTTAAAATTA
1 AAAATATGTTTAAAATTA
18107160 TTGTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAATATGTTTAAAATTA
Found at i:18107166 original size:13 final size:12
Alignment explanation
Indices: 18107139--18107174 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
18107129 ATTTATAAAA
18107139 TTAAAAATATGT
1 TTAAAAATATGT
*
18107151 TTAAAATTATTGT
1 TTAAAAATA-TGT
18107164 TTAAAAATATG
1 TTAAAAATATG
18107175 ATTATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TTAAAAATATGT
Found at i:18107458 original size:67 final size:67
Alignment explanation
Indices: 18107350--18107486 Score: 256
Period size: 67 Copynumber: 2.0 Consensus size: 67
18107340 TATAAAGCCA
18107350 AAGCAAGCTTGAAATTAGTCAATTTCGAATACACCAATTTTAAGTCAAGAAACAGGCAGCGCAAT
1 AAGCAAGCTTGAAATTAGTCAATTTCGAATACACCAATTTTAAGTCAAGAAACAGGCAGCGCAAT
18107415 GG
66 GG
* *
18107417 AAGCAAGCTTGAAATTAGTCAATTTCGAATACGCCTATTTTAAGTCAAGAAACAGGCAGCGCAAT
1 AAGCAAGCTTGAAATTAGTCAATTTCGAATACACCAATTTTAAGTCAAGAAACAGGCAGCGCAAT
18107482 GG
66 GG
18107484 AAG
1 AAG
18107487 TTAAGAGAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (67 bp):
AAGCAAGCTTGAAATTAGTCAATTTCGAATACACCAATTTTAAGTCAAGAAACAGGCAGCGCAAT
GG
Found at i:18110665 original size:20 final size:21
Alignment explanation
Indices: 18110642--18110685 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
18110632 CTCTCTTTTC
18110642 TTTTCTTTT-ACATTTTTCTT
1 TTTTCTTTTGACATTTTTCTT
**
18110662 TTTTCTTTTGATTTTTTTCTT
1 TTTTCTTTTGACATTTTTCTT
18110683 TTT
1 TTT
18110686 GACTGTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTCTTTTGACATTTTTCTT
Found at i:18112670 original size:18 final size:18
Alignment explanation
Indices: 18112647--18112684 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
18112637 ATTACACATG
18112647 TCGTCTTTTGAATCATAC
1 TCGTCTTTTGAATCATAC
18112665 TCGTCTTTTGAATCATAC
1 TCGTCTTTTGAATCATAC
18112683 TC
1 TC
18112685 ACATTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (18 bp):
TCGTCTTTTGAATCATAC
Found at i:18114791 original size:22 final size:23
Alignment explanation
Indices: 18114766--18114811 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
18114756 CAACCAAATC
18114766 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
18114788 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
18114811 A
1 A
18114812 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:18114817 original size:23 final size:23
Alignment explanation
Indices: 18114773--18114817 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18114763 ATCAATTCAA
*
18114773 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
18114796 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
18114818 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:18122542 original size:22 final size:23
Alignment explanation
Indices: 18122517--18122562 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
18122507 CAACCAAATC
18122517 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
18122539 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
18122562 A
1 A
18122563 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:18122568 original size:23 final size:23
Alignment explanation
Indices: 18122524--18122568 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18122514 ATCAATTCAA
*
18122524 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
18122547 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
18122569 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:18126070 original size:12 final size:12
Alignment explanation
Indices: 18126053--18126082 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
18126043 GTGAACATTT
18126053 AATTTCCATTAA
1 AATTTCCATTAA
18126065 AATTTCCATTAA
1 AATTTCCATTAA
18126077 ATATTT
1 A-ATTT
18126083 TTTCCTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTTCCATTAA
Found at i:18126092 original size:16 final size:17
Alignment explanation
Indices: 18126067--18126102 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
18126057 TCCATTAAAA
18126067 TTTCCATTAAATATT-T
1 TTTCCATTAAATATTCT
*
18126083 TTTCCTTTAAATATTCT
1 TTTCCATTAAATATTCT
18126100 TTT
1 TTT
18126103 TTAAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTCCATTAAATATTCT
Found at i:18136569 original size:358 final size:348
Alignment explanation
Indices: 18135922--18136970 Score: 1990
Period size: 358 Copynumber: 3.0 Consensus size: 348
18135912 TTCAAAACTC
18135922 AACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCATCTAT
1 AACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCATCTAT
18135987 CCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGTAAAA
66 CCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGTAAAA
18136052 AAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAATATGCTTCAATACA
131 AAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAATATGCTTCAATACA
18136117 TCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTTCACCTTATGCAACC
196 TCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTTCACCTTATGCAACC
18136182 AATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAATTTACATCTATTGG
261 AATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAATTTACATCTATTGG
*
18136247 CTCTTGAGCAATGAAATTTACTA
326 TTCTTGAGCAATGAAATTTACTA
18136270 AACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCATCTAT
1 AACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCATCTAT
18136335 CCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGTAAAA
66 CCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGT----
18136400 AAAAAAAAAAAAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAATATG
127 ------AAAAAAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAATATG
18136465 CTTCAATACATCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTTCACC
186 CTTCAATACATCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTTCACC
18136530 TTATGCAACCAATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAATTTA
251 TTATGCAACCAATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAATTTA
*
18136595 CATCTATTGGTTCTTGAGCAATGAAATTTACTC
316 CATCTATTGGTTCTTGAGCAATGAAATTTACTA
18136628 AACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCATCTAT
1 AACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCATCTAT
18136693 CCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGTAAAA
66 CCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGTAAAA
18136758 AAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAATATGCTTCAATACA
131 AAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAATATGCTTCAATACA
18136823 TCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTTCACCTTATGCAACC
196 TCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTTCACCTTATGCAACC
18136888 AATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAATTTACATCTATTGG
261 AATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAATTTACATCTATTGG
18136953 TTCTTGAGCAATGAAATT
326 TTCTTGAGCAATGAAATT
18136971 ATAGTTTAAG
Statistics
Matches: 689, Mismatches: 2, Indels: 20
0.97 0.00 0.03
Matches are distributed among these distances:
348 343 0.50
358 346 0.50
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.28
Consensus pattern (348 bp):
AACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCATCTAT
CCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGTAAAA
AAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAATATGCTTCAATACA
TCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTTCACCTTATGCAACC
AATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAATTTACATCTATTGG
TTCTTGAGCAATGAAATTTACTA
Found at i:18136962 original size:348 final size:348
Alignment explanation
Indices: 18135918--18136970 Score: 1998
Period size: 348 Copynumber: 3.0 Consensus size: 348
18135908 ATGTTTCAAA
18135918 ACTCAACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCAT
1 ACTCAACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCAT
18135983 CTATCCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGT
66 CTATCCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGT
18136048 AAAAAAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAATATGCTTCAA
131 AAAAAAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAATATGCTTCAA
18136113 TACATCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTTCACCTTATGC
196 TACATCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTTCACCTTATGC
18136178 AACCAATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAATTTACATCTA
261 AACCAATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAATTTACATCTA
*
18136243 TTGGCTCTTGAGCAATGAAATTT
326 TTGGTTCTTGAGCAATGAAATTT
*
18136266 ACTAAACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCAT
1 ACTCAACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCAT
18136331 CTATCCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGT
66 CTATCCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGT
18136396 AAAAAAAAAAAAAAAAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAA
131 ----------AAAAAAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAA
18136461 TATGCTTCAATACATCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTT
186 TATGCTTCAATACATCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTT
18136526 CACCTTATGCAACCAATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAA
251 CACCTTATGCAACCAATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAA
18136591 TTTACATCTATTGGTTCTTGAGCAATGAAATTT
316 TTTACATCTATTGGTTCTTGAGCAATGAAATTT
18136624 ACTCAACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCAT
1 ACTCAACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCAT
18136689 CTATCCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGT
66 CTATCCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGT
18136754 AAAAAAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAATATGCTTCAA
131 AAAAAAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAATATGCTTCAA
18136819 TACATCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTTCACCTTATGC
196 TACATCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTTCACCTTATGC
18136884 AACCAATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAATTTACATCTA
261 AACCAATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAATTTACATCTA
18136949 TTGGTTCTTGAGCAATGAAATT
326 TTGGTTCTTGAGCAATGAAATT
18136971 ATAGTTTAAG
Statistics
Matches: 692, Mismatches: 3, Indels: 20
0.97 0.00 0.03
Matches are distributed among these distances:
348 346 0.50
358 346 0.50
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.28
Consensus pattern (348 bp):
ACTCAACCTTATCCTGCATGCATAAAATCAAATATATGATCTCATGGAAACAGAAATTAAATCAT
CTATCCCATAATGAGAATTGTCCCACCATTCTTTCTTCGTCTATAGGGAAGGTGTGGTAACAAGT
AAAAAAAAACAGCATCAAGAAGCAAATAAAATAACAGCATAGCCCAAAAAACTAATATGCTTCAA
TACATCTTCTAGGGTACAACATATCATGATACTTGTAACAAAGTAAAAAACCTTTCACCTTATGC
AACCAATTTTACTCCACAAAAGGAATGGACAAGGACTTTCTATTATTTCTACAAATTTACATCTA
TTGGTTCTTGAGCAATGAAATTT
Found at i:18142272 original size:27 final size:27
Alignment explanation
Indices: 18142211--18142261 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
18142201 ATTTTGAGTT
*
18142211 AATAAATTCTCTTTGAGTTTTTCTTTC
1 AATAATTTCTCTTTGAGTTTTTCTTTC
*
18142238 AAGAATTTCTC-TTGA-TTTTTCTTT
1 AATAATTTCTCTTTGAGTTTTTCTTT
18142262 TAGAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.41
26 4 0.18
27 9 0.41
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.57
Consensus pattern (27 bp):
AATAATTTCTCTTTGAGTTTTTCTTTC
Found at i:18144867 original size:42 final size:42
Alignment explanation
Indices: 18144805--18144892 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
18144795 GTTTCAGTTC
* * *
18144805 AACCTTAATGGGTTTTCGTTCAGCTC-TATTGAGCTTCTGTTT
1 AACCTTAATAGGTTTCCGTTCAGCTCTTA-TGAGCTTCTATTT
* *
18144847 AACCTTTATAGGTTTCCGTTCAGCTCTTATGAGCTTTTATTT
1 AACCTTAATAGGTTTCCGTTCAGCTCTTATGAGCTTCTATTT
18144889 AACC
1 AACC
18144893 CTTACGGGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.44
Consensus pattern (42 bp):
AACCTTAATAGGTTTCCGTTCAGCTCTTATGAGCTTCTATTT
Found at i:18144903 original size:42 final size:42
Alignment explanation
Indices: 18144814--18144926 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
18144804 CAACCTTAAT
* * * *
18144814 GGGTTTTCGTTCAGCTC-TATTGAGCTTCTGTTTAACCTTTAT
1 GGGTTTCCGTTCAGCTCTTA-TGAGCTTCTATTTAACCCTTAC
* *
18144856 AGGTTTCCGTTCAGCTCTTATGAGCTTTTATTTAACCCTTAC
1 GGGTTTCCGTTCAGCTCTTATGAGCTTCTATTTAACCCTTAC
* * * *
18144898 GGGTTTCTGTTTAGCACTTATGTGCTTCT
1 GGGTTTCCGTTCAGCTCTTATGAGCTTCT
18144927 GTGCAGCCTT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 56 0.97
43 2 0.03
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (42 bp):
GGGTTTCCGTTCAGCTCTTATGAGCTTCTATTTAACCCTTAC
Found at i:18152058 original size:21 final size:21
Alignment explanation
Indices: 18152028--18152085 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
18152018 GCTTTTGTTT
18152028 AACCCTTATGGGTTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
* * *
18152049 AGCTCTTATGAGCTTT-CGTTC
1 AACCCTTATG-GGTTTCCGTTC
*
18152070 AACCCTTACGGGTTTC
1 AACCCTTATGGGTTTC
18152086 TGTTTAGCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
20 4 0.14
21 20 0.71
22 4 0.14
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.38
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCGTTC
Found at i:18152100 original size:42 final size:41
Alignment explanation
Indices: 18151977--18152105 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 41
18151967 CTTATATAAG
* * *
18151977 TTTCAGTTCAACCCTAATAGGTTTCTGTTCAGCTCTATTGAGC
1 TTTC-GTTCAACCCTTATGGGTTTCTGTTCAGCTTTA-TGAGC
* * *
18152020 TTTTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGC
1 TTTCGTTCAACCCTTATGGGTTTCTGTTCAGCT-TTATGAGC
* * *
18152062 TTTCGTTCAACCCTTACGGGTTTCTGTTTAGCATTTATGTGC
1 TTTCGTTCAACCCTTATGGGTTTCTGTTCAGC-TTTATGAGC
18152104 TT
1 TT
18152106 CTGTATAGCC
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 66 0.92
43 6 0.08
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (41 bp):
TTTCGTTCAACCCTTATGGGTTTCTGTTCAGCTTTATGAGC
Found at i:18153291 original size:30 final size:30
Alignment explanation
Indices: 18153250--18153309 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
18153240 TTATTGTCAA
*
18153250 AATTTTTTTATTATTTTAAAGACATTTGCT
1 AATTTTGTTATTATTTTAAAGACATTTGCT
* *
18153280 AATTTTGTTATTATTTTAGAGGCATTTGCT
1 AATTTTGTTATTATTTTAAAGACATTTGCT
18153310 TGTTAAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.55
Consensus pattern (30 bp):
AATTTTGTTATTATTTTAAAGACATTTGCT
Found at i:18153452 original size:12 final size:12
Alignment explanation
Indices: 18153431--18153464 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18153421 TATATATTTT
*
18153431 AAAATTATATAA
1 AAAATAATATAA
18153443 AAAATAATATAA
1 AAAATAATATAA
*
18153455 AAATTAATAT
1 AAAATAATAT
18153465 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:18156880 original size:5 final size:5
Alignment explanation
Indices: 18156866--18156968 Score: 199
Period size: 5 Copynumber: 20.8 Consensus size: 5
18156856 AAGAATTAAG
18156866 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
18156915 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
18156965 TATA
1 TATA
18156969 ATAAAACAAA
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.04
5 94 0.96
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:18157123 original size:40 final size:40
Alignment explanation
Indices: 18157079--18157159 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
18157069 AGTTTCAAGC
18157079 TCAAATGGATAGTCAATTTAATTCTTTTTCTTATAATTTT
1 TCAAATGGATAGTCAATTTAATTCTTTTTCTTATAATTTT
18157119 TCAAATGGATAGTCAATTTAATTCTTTTTCTTATAATTTT
1 TCAAATGGATAGTCAATTTAATTCTTTTTCTTATAATTTT
18157159 T
1 T
18157160 ATATTTTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (40 bp):
TCAAATGGATAGTCAATTTAATTCTTTTTCTTATAATTTT
Found at i:18165154 original size:16 final size:16
Alignment explanation
Indices: 18165133--18165186 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
18165123 ACACAATTCA
18165133 TAAAATATATATAAAT
1 TAAAATATATATAAAT
* *
18165149 TAAAATTTATA-AAAC
1 TAAAATATATATAAAT
*
18165164 AAATAATATATATAAAT
1 TAA-AATATATATAAAT
18165181 TCAAAA
1 T-AAAA
18165187 AAACTTAGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 5 0.17
16 17 0.59
17 5 0.17
18 2 0.07
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAATATATATAAAT
Found at i:18171675 original size:34 final size:31
Alignment explanation
Indices: 18171635--18171708 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 31
18171625 TAATGCATGT
* *
18171635 CATAATTAAAAGATGTAGATTAATAATACAAGA
1 CATAATTAAAACATGCA-ATTAATAA-ACAAGA
*
18171668 CATTAATT-AAACATGCATTTAATAAACAAGA
1 CA-TAATTAAAACATGCAATTAATAAACAAGA
18171699 CATAATTAAA
1 CATAATTAAA
18171709 GACTCATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 5 0.14
31 10 0.28
32 7 0.19
33 9 0.25
34 5 0.14
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.28
Consensus pattern (31 bp):
CATAATTAAAACATGCAATTAATAAACAAGA
Found at i:18171708 original size:15 final size:16
Alignment explanation
Indices: 18171653--18171708 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
18171643 AAAGATGTAG
18171653 ATTAA-TAATACAAGAC
1 ATTAATTAA-ACAAGAC
*
18171669 ATTAATTAAACATG-C
1 ATTAATTAAACAAGAC
18171684 ATTTAA-TAAACAAGAC
1 A-TTAATTAAACAAGAC
18171700 A-TAATTAAA
1 ATTAATTAAA
18171709 GACTCATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 3 0.09
15 13 0.38
16 15 0.44
17 3 0.09
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (16 bp):
ATTAATTAAACAAGAC
Found at i:18171919 original size:13 final size:13
Alignment explanation
Indices: 18171903--18171927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18171893 TGTGGACAAA
18171903 ATAAATACATGTG
1 ATAAATACATGTG
18171916 ATAAATACATGT
1 ATAAATACATGT
18171928 ATATATACTA
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:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (13 bp):
ATAAATACATGTG
Found at i:18172124 original size:19 final size:21
Alignment explanation
Indices: 18172089--18172127 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
18172079 AAAATATTTT
18172089 AGTGGATTAGTTTTTTAAAAG
1 AGTGGATTAGTTTTTTAAAAG
18172110 AGTGGATT-G-TTTTTAAAA
1 AGTGGATTAGTTTTTTAAAA
18172128 TTAAATGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (21 bp):
AGTGGATTAGTTTTTTAAAAG
Found at i:18179230 original size:21 final size:21
Alignment explanation
Indices: 18179194--18179255 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
18179184 ATGAGAGTTA
* *
18179194 AACGGAAACCCGTAAGGGTTG
1 AACGAAAACCCATAAGGGTTG
* * * *
18179215 AACGAAAGCTCATAAGAGCTG
1 AACGAAAACCCATAAGGGTTG
18179236 AACGAAAACCCATAAGGGTT
1 AACGAAAACCCATAAGGGTT
18179256 AAACTGAAGT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (21 bp):
AACGAAAACCCATAAGGGTTG
Found at i:18179286 original size:42 final size:42
Alignment explanation
Indices: 18179173--18179286 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
18179163 CCGAAGGCTG
* * * *
18179173 AACTGAAGCTCATGAGAGTTAAACGGAAACCCGTAAGGGTTG
1 AACTGAAGCTCATAAGAGTTAAACGAAAACCCATAAGGGTTA
* *
18179215 AAC-GAAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTA
1 AACTG-AAGCTCATAAGAGTTAAACGAAAACCCATAAGGGTTA
* * *
18179257 AACTGAAGTTCAAAAGAGTTAAACAAAAAC
1 AACTGAAGCTCATAAGAGTTAAACGAAAAC
18179287 TGAAACTCAT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.02
42 57 0.97
43 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.17
Consensus pattern (42 bp):
AACTGAAGCTCATAAGAGTTAAACGAAAACCCATAAGGGTTA
Found at i:18179287 original size:27 final size:27
Alignment explanation
Indices: 18179256--18179308 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
18179246 CATAAGGGTT
**
18179256 AAACTGAAGTTCAAAAGAGTTAAACAA
1 AAACTGAAACTCAAAAGAGTTAAACAA
* *
18179283 AAACTGAAACTCATATGAGTTAAACA
1 AAACTGAAACTCAAAAGAGTTAAACA
18179309 GAAGCTCGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (27 bp):
AAACTGAAACTCAAAAGAGTTAAACAA
Found at i:18179411 original size:24 final size:24
Alignment explanation
Indices: 18179383--18179429 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
18179373 TACTTGGGTA
18179383 ATTTACCATCAATTCATACTTTGT
1 ATTTACCATCAATTCATACTTTGT
** *
18179407 ATTTACTGTCAATTCATCCTTTG
1 ATTTACCATCAATTCATACTTTG
18179430 CCACAGAACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTTACCATCAATTCATACTTTGT
Found at i:18179519 original size:18 final size:18
Alignment explanation
Indices: 18179483--18179520 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
18179473 CATTTAATTC
18179483 AATTTTATAATTTAACAAT
1 AATTTTAT-ATTTAACAAT
18179502 AATTTTAT-TTTCAACAAT
1 AATTTTATATTT-AACAAT
18179520 A
1 A
18179521 GATATGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 7 0.39
19 8 0.44
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTTATATTTAACAAT
Found at i:18185981 original size:34 final size:37
Alignment explanation
Indices: 18185942--18186014 Score: 98
Period size: 40 Copynumber: 2.0 Consensus size: 37
18185932 TAATGGAACC
18185942 TCAAAATAT-A-A-CTTTTGTTGAATCTTCATGCTTA
1 TCAAAATATAATACCTTTTGTTGAATCTTCATGCTTA
18185976 TCAAAATATAAAAATACCTTTTGTTGAATCTTCATGCTT
1 TCAAAATAT---AATACCTTTTGTTGAATCTTCATGCTT
18186015 TTGTTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
34 9 0.27
38 1 0.03
39 1 0.03
40 22 0.67
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (37 bp):
TCAAAATATAATACCTTTTGTTGAATCTTCATGCTTA
Found at i:18189720 original size:18 final size:18
Alignment explanation
Indices: 18189699--18189733 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18189689 TATAATGTAA
*
18189699 AAAAAAAGGATAAACATT
1 AAAAAAAGGAAAAACATT
*
18189717 AAAAAATGGAAAAACAT
1 AAAAAAAGGAAAAACAT
18189734 AGATATTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.06, G:0.11, T:0.14
Consensus pattern (18 bp):
AAAAAAAGGAAAAACATT
Found at i:18192344 original size:89 final size:88
Alignment explanation
Indices: 18192071--18192368 Score: 303
Period size: 89 Copynumber: 3.3 Consensus size: 88
18192061 CTACCATGGT
* * * * *
18192071 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCACAAGTTTTATCTCCCTGAGGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-ATAAATCTTATCTCACTGAAGTT
* * *
18192136 GCAGTGAAGCAAATTGAAGAA-AGC
65 GCAGTGGAGCAGATT-AAAAATAGC
* * * * *
18192160 AAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAG-ATAACGAGTCTTATCTCACTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTATAA--A-TCTTATCTCACTGAAG
* * *
18192224 TTGCAGTGGAACAGATTGAAGATAGC
63 TTGCAGTGGAGCAGATTAAAAATAGC
* * * * * *
18192250 CAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAACCTTATCACACTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TATAAATCTTATCTCACTGAAGTT
* *
18192315 GCAGTGGAGCAGGTTAAAAATAAC
65 GCAGTGGAGCAGATTAAAAATAGC
*
18192339 AAATCTTATCTCCCTGAGGTTGCAGTGGAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAG
18192369 TAGGTTGAAG
Statistics
Matches: 168, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
87 3 0.02
89 97 0.58
90 64 0.38
92 4 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (88 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTATAAATCTTATCTCACTGAAGTTG
CAGTGGAGCAGATTAAAAATAGC
Found at i:18192374 original size:45 final size:45
Alignment explanation
Indices: 18192071--18192368 Score: 260
Period size: 45 Copynumber: 6.7 Consensus size: 45
18192061 CTACCATGGT
* *
18192071 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGTCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAAC
* * * * * * *
18192115 AAGTTTTATCTCCCTGAGGTTGCAGTGAAGCAAATTGAAGAA-AGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAAATAAC
* * * * * *
18192160 AAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAAC
* * * * * * *
18192205 GAGTCTTATCTCACTGAAGTTGCAGTGGAACAGATTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAAC
* * * * ** *
18192250 CAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCT-AT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAAC
* * * *
18192294 AAACCTTATCACACTGAAGTTGCAGTGGAGCAGGTTAAAAATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAAC
*
18192339 AAATCTTATCTCCCTGAGGTTGCAGTGGAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAG
18192369 TAGGTTGAAG
Statistics
Matches: 200, Mismatches: 50, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
44 66 0.33
45 132 0.66
46 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (45 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAAC
Found at i:18192405 original size:44 final size:45
Alignment explanation
Indices: 18192307--18192406 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 45
18192297 CCTTATCACA
** *
18192307 CTGAAGTTGCAGTGGAGCAGGTTAAAAATAACAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGGTTAAAAATAACAAATCCAATATCC
* * * * *
18192352 CTGAGGTTGCAGTGGAGTAGGTT-GAAGTTACAAATCCAATATCC
1 CTGAAGTTGCAGTGGAGCAGGTTAAAAATAACAAATCCAATATCC
*
18192396 TTGAAGTTGCA
1 CTGAAGTTGCA
18192407 ATTGTAATGA
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
44 24 0.53
45 21 0.47
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (45 bp):
CTGAAGTTGCAGTGGAGCAGGTTAAAAATAACAAATCCAATATCC
Found at i:18192703 original size:3 final size:3
Alignment explanation
Indices: 18192697--18192743 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
18192687 ATCTAAGATT
*
18192697 TTA TTA TTA TTA TTA TTAA TTA TTA GTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
18192742 TT
1 TT
18192744 TTTAAGTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:18192847 original size:23 final size:24
Alignment explanation
Indices: 18192821--18192879 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
18192811 ATAATGACAA
*
18192821 TTGTAATAAAA-ATATC-GGTACAT
1 TTGTAATAAAAGATA-CAGGTACAC
*
18192844 TTGTAATAAATAGATACATGTACAC
1 TTGTAATAAA-AGATACAGGTACAC
18192869 TTGTAATAAAA
1 TTGTAATAAAA
18192880 TAATTAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 3 0.10
25 18 0.58
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (24 bp):
TTGTAATAAAAGATACAGGTACAC
Found at i:18195266 original size:45 final size:45
Alignment explanation
Indices: 18195200--18195365 Score: 181
Period size: 45 Copynumber: 3.6 Consensus size: 45
18195190 TGAGGCCACA
18195200 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCG
* ** * *
18195245 AATCTTATTTCCCT-AAGGTTGCAGTGGAATAGATTAAAGCTACAAGTCACA
1 AATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTAAAG--A-TAG---CG
* * *
18195296 AATCTTATCTCCCTAAAGTTGCAGTCGAGCAAATTAAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCG
*
18195341 AATCTTATTTCCCTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
18195366 AGAATAGATT
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
44 2 0.02
45 57 0.58
47 1 0.01
48 4 0.04
49 1 0.01
51 32 0.32
52 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCG
Found at i:18195316 original size:96 final size:96
Alignment explanation
Indices: 18195196--18195395 Score: 330
Period size: 96 Copynumber: 2.1 Consensus size: 96
18195186 AGATTGAGGC
* * *
18195196 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCT-A
1 CACAAATCTTATCTCCCTAAAGTTGCAGTCGAGCAAATTAAAGATAGCGAATCTTATTTCCCTGA
*
18195260 AGGTTGCAGTGGAATAGATTAAAGCTACAAGT
66 A-GTTGCAGTAGAATAGATTAAAGCTACAAGT
18195292 CACAAATCTTATCTCCCTAAAGTTGCAGTCGAGCAAATTAAAGATAGCGAATCTTATTTCCCTGA
1 CACAAATCTTATCTCCCTAAAGTTGCAGTCGAGCAAATTAAAGATAGCGAATCTTATTTCCCTGA
*
18195357 AGTTGCAGTAGAATAGATTAGAGCTACAAGT
66 AGTTGCAGTAGAATAGATTAAAGCTACAAGT
*
18195388 TACAAATC
1 CACAAATC
18195396 CTATACCTCT
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
96 95 0.98
97 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (96 bp):
CACAAATCTTATCTCCCTAAAGTTGCAGTCGAGCAAATTAAAGATAGCGAATCTTATTTCCCTGA
AGTTGCAGTAGAATAGATTAAAGCTACAAGT
Found at i:18195673 original size:286 final size:286
Alignment explanation
Indices: 18195150--18195673 Score: 590
Period size: 286 Copynumber: 1.8 Consensus size: 286
18195140 TGAAATTATC
* * * * * * *
18195150 ATGGCGAATCTTATTTCTTTGAAGTTGTAGTGGGGCAGATTGAGGCCACAAATCTTATCTCCCTG
1 ATGGCGAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTG
* * * * *
18195215 AAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTAAGGTTGCAGTGGAATAGATT
66 AAGTTGCAATAGAGCAGATAAAAGATAGCAAATCTTATTTCCCTAAGGTTGCAGTGGAAAAGATT
** * * *
18195280 AAAGCTACAAGTCACAAATCTTATCTCCCTAAAGTTGCAGTCGAGCAAATTAAAGATAGCGAATC
131 AAAGCTACAAACCACAAATATTATCTCACTAAAGTTGCAGTCGAGCAAATTAAAGATAGCAAATC
* * * * * *
18195345 TTATTTCCCTGAAGTTGCAGTAGAATAGATTAGAGCTACAAGTTACAAATCCTATACCTCTAAAG
196 TAATCTCCCTAAAATTGCAGTAGAACAGAATAGAGCTACAAGTTACAAATCCTATACCTCTAAAG
18195410 CTGCAGTAGGTCGGATCAAATCTACT
261 CTGCAGTAGGTCGGATCAAATCTACT
* * * *
18195436 ATGGTGAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGTCACAAGT-TTCATTTCCCT
1 ATGGCGAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTT-ATCTCCCT
* * *
18195500 GAAGTTGCAATAGAGTAGATAAAAGATAGCAAATCTTATTTTCCTGAA-GTTGTAGTGGAACAAG
65 GAAGTTGCAATAGAGCAGATAAAAGATAGCAAATCTTATTTCCCT-AAGGTTGCAGTGGAA-AAG
* * * * * * *
18195564 ATTAAAGCTACAAACCACAAATATTATCTTACTGAAGTTGTAGT-GAAG-AGGATTGATGCTA-C
128 ATTAAAGCTACAAACCACAAATATTATCTCACTAAAGTTGCAGTCG-AGCA-AATTAAAGATAGC
* * * * *
18195626 AAATCTAATCTCTCTAAAATTGCAGTGGAGCAGAATGGAGTTACAAGT
191 AAATCTAATCTCCCTAAAATTGCAGTAGAACAGAATAGAGCTACAAGT
18195674 CTAATCTCCC
Statistics
Matches: 191, Mismatches: 42, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
285 2 0.01
286 139 0.73
287 50 0.26
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (286 bp):
ATGGCGAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTG
AAGTTGCAATAGAGCAGATAAAAGATAGCAAATCTTATTTCCCTAAGGTTGCAGTGGAAAAGATT
AAAGCTACAAACCACAAATATTATCTCACTAAAGTTGCAGTCGAGCAAATTAAAGATAGCAAATC
TAATCTCCCTAAAATTGCAGTAGAACAGAATAGAGCTACAAGTTACAAATCCTATACCTCTAAAG
CTGCAGTAGGTCGGATCAAATCTACT
Found at i:18204028 original size:29 final size:29
Alignment explanation
Indices: 18203984--18204050 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
18203974 GCCTTTGTTA
* * *
18203984 GACAATAGTTCGAGGTTGAGTCTATGCTT
1 GACAATAGTTCGAGGTTGAATATATGCTC
** *
18204013 GACAATAGTTTTAGGTTGAATATGTGCTC
1 GACAATAGTTCGAGGTTGAATATATGCTC
18204042 GACAATAGT
1 GACAATAGT
18204051 GCATCTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (29 bp):
GACAATAGTTCGAGGTTGAATATATGCTC
Found at i:18208294 original size:11 final size:11
Alignment explanation
Indices: 18208278--18208312 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
18208268 ATTTTGAACT
18208278 TCCCACATGTG
1 TCCCACATGTG
18208289 TCCCACATGTG
1 TCCCACATGTG
* *
18208300 TCTCACATATG
1 TCCCACATGTG
18208311 TC
1 TC
18208313 TAGTAAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.31
Consensus pattern (11 bp):
TCCCACATGTG
Found at i:18219320 original size:48 final size:48
Alignment explanation
Indices: 18219249--18219416 Score: 255
Period size: 48 Copynumber: 3.5 Consensus size: 48
18219239 GTGATCCTGT
*
18219249 ATAGCATCGGCATTGTTACGTGAGCCAGTGTAAGACCATGTTTGGGAC
1 ATAGCATCGGCATTGTTACGTGAGCCAGTGTAAGACCATGTCTGGGAC
* * * *
18219297 ATAGCATCGACATTGTTACGTGAGCCAATGTAAGACCATGTCTAGAAC
1 ATAGCATCGGCATTGTTACGTGAGCCAGTGTAAGACCATGTCTGGGAC
* *
18219345 ATGGCATCGGCATTGTTACATGAGCCAGTGTAAGACCATGTCTGGGAC
1 ATAGCATCGGCATTGTTACGTGAGCCAGTGTAAGACCATGTCTGGGAC
* *
18219393 ATGGCATCGGCATTGTTATGTGAG
1 ATAGCATCGGCATTGTTACGTGAG
18219417 TGGCATCGGC
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 107 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (48 bp):
ATAGCATCGGCATTGTTACGTGAGCCAGTGTAAGACCATGTCTGGGAC
Found at i:18219424 original size:23 final size:23
Alignment explanation
Indices: 18219394--18219439 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
18219384 GTCTGGGACA
18219394 TGGCATCGGCATTGTTATGTGAG
1 TGGCATCGGCATTGTTATGTGAG
18219417 TGGCATCGGCATTGTTATGTGAG
1 TGGCATCGGCATTGTTATGTGAG
18219440 CCAGTGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.35, T:0.35
Consensus pattern (23 bp):
TGGCATCGGCATTGTTATGTGAG
Found at i:18219449 original size:119 final size:119
Alignment explanation
Indices: 18219300--18219524 Score: 353
Period size: 119 Copynumber: 1.9 Consensus size: 119
18219290 TTGGGACATA
*
18219300 GCATCGACATTGTTACGTGAGCCAATGTAAGACCATGTCTAGAACATGGCATCGGCATTGTTA-C
1 GCATCGACATTGTTACGTGAGCCAATGTAAGACCATGTCTAGAACATGGCATCGGCATGGTTATC
18219364 ATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGTG
66 -TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGTG
* * * ** * *
18219419 GCATCGGCATTGTTATGTGAGCCAGTGTAAGATTATGTCTGGGACATGGCATCGGCATGGTTATC
1 GCATCGACATTGTTACGTGAGCCAATGTAAGACCATGTCTAGAACATGGCATCGGCATGGTTATC
*
18219484 TGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
66 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
18219525 GAGGCATCGT
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
119 95 0.99
120 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (119 bp):
GCATCGACATTGTTACGTGAGCCAATGTAAGACCATGTCTAGAACATGGCATCGGCATGGTTATC
TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGTG
Found at i:18219462 original size:71 final size:71
Alignment explanation
Indices: 18219346--18219488 Score: 232
Period size: 71 Copynumber: 2.0 Consensus size: 71
18219336 GTCTAGAACA
*
18219346 TGGCATCGGCATTGTTACATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTA
1 TGGCATCGGCATTGTTACATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGTTA
*
18219411 TGTGAG
66 TCTGAG
** **
18219417 TGGCATCGGCATTGTTATGTGAGCCAGTGTAAGATTATGTCTGGGACATGGCATCGGCATGGTTA
1 TGGCATCGGCATTGTTACATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGTTA
18219482 TCTGAG
66 TCTGAG
18219488 T
1 T
18219489 CAGTGTAAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (71 bp):
TGGCATCGGCATTGTTACATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGTTA
TCTGAG
Found at i:18219474 original size:48 final size:48
Alignment explanation
Indices: 18219417--18219525 Score: 173
Period size: 48 Copynumber: 2.3 Consensus size: 48
18219407 GTTATGTGAG
* * **
18219417 TGGCATCGGCATTGTTATGTGAGCCAGTGTAAGATTATGTCTGGGACA
1 TGGCATCGGCATGGTTATCTGAGCCAGTGTAAGACCATGTCTGGGACA
*
18219465 TGGCATCGGCATGGTTATCTGAGTCAGTGTAAGACCATGTCTGGGACA
1 TGGCATCGGCATGGTTATCTGAGCCAGTGTAAGACCATGTCTGGGACA
18219513 TGGCATCGGCATG
1 TGGCATCGGCATG
18219526 AGGCATCGTG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (48 bp):
TGGCATCGGCATGGTTATCTGAGCCAGTGTAAGACCATGTCTGGGACA
Found at i:18223010 original size:39 final size:39
Alignment explanation
Indices: 18222941--18223137 Score: 241
Period size: 39 Copynumber: 5.0 Consensus size: 39
18222931 TAGTTCATTT
* * * * *
18222941 ACATGATAATCACATTCACTTTTAAGCATATACCACATTAC
1 ACAT-ATAATCACA-TAACATTCAAGCATATATCACAATAC
* *
18222982 ACATATAATCACATAATATTCAAACATATATCACAATAC
1 ACATATAATCACATAACATTCAAGCATATATCACAATAC
* *
18223021 ACGTATAATCACATAACATTCAAGCATATATCATAATAC
1 ACATATAATCACATAACATTCAAGCATATATCACAATAC
* *
18223060 TCATATAATCACATAACTTTCAAGCATATATCACAATAC
1 ACATATAATCACATAACATTCAAGCATATATCACAATAC
* * * *
18223099 TCATATAATCAAATAACATTTAAGCATATATCATAATAC
1 ACATATAATCACATAACATTCAAGCATATATCACAATAC
18223138 TCAAAAACAT
Statistics
Matches: 137, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 124 0.91
40 9 0.07
41 4 0.03
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.30
Consensus pattern (39 bp):
ACATATAATCACATAACATTCAAGCATATATCACAATAC
Found at i:18223082 original size:78 final size:78
Alignment explanation
Indices: 18222941--18223140 Score: 267
Period size: 78 Copynumber: 2.5 Consensus size: 78
18222931 TAGTTCATTT
* * * * * *
18222941 ACATGATAATCACATTCACTTTTAAGCATATACCACATTACACATATAATCACATAATATTCAAA
1 ACAT-ATAATCACA-TAACATTTAAGCATATATCATAATACTCATATAATCACATAATATTCAAA
18223006 CATATATCACAATAC
64 CATATATCACAATAC
* * *
18223021 ACGTATAATCACATAACATTCAAGCATATATCATAATACTCATATAATCACATAACT-TTCAAGC
1 ACATATAATCACATAACATTTAAGCATATATCATAATACTCATATAATCACATAA-TATTCAAAC
18223085 ATATATCACAATAC
65 ATATATCACAATAC
* *
18223099 TCATATAATCAAATAACATTTAAGCATATATCATAATACTCA
1 ACATATAATCACATAACATTTAAGCATATATCATAATACTCA
18223141 AAAACATGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
78 93 0.88
79 10 0.09
80 3 0.03
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.30
Consensus pattern (78 bp):
ACATATAATCACATAACATTTAAGCATATATCATAATACTCATATAATCACATAATATTCAAACA
TATATCACAATAC
Found at i:18225991 original size:51 final size:51
Alignment explanation
Indices: 18225932--18226036 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
18225922 CCTTTCTCAT
18225932 TGTTTGCAAAATGTCCCACTATTGTTGTCCTATTTGGCTATTCATGTTTAA
1 TGTTTGCAAAATGTCCCACTATTGTTGTCCTATTTGGCTATTCATGTTTAA
*
18225983 TGTTTGCAAAATGTCCCACTATTGTTGTCCTATTTGGCTATTCGTGTTTAA
1 TGTTTGCAAAATGTCCCACTATTGTTGTCCTATTTGGCTATTCATGTTTAA
18226034 TGT
1 TGT
18226037 CCCAGTAGAC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (51 bp):
TGTTTGCAAAATGTCCCACTATTGTTGTCCTATTTGGCTATTCATGTTTAA
Found at i:18232295 original size:27 final size:27
Alignment explanation
Indices: 18232264--18232468 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
18232254 ATATTGAGTC
* * *
18232264 CGCACACTCAGTGCTATATCA-TCAACT
1 CGCACACTTAGTGCTACAT-AGTCAAAT
* *
18232291 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18232318 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18232346 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18232373 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18232400 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18232427 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18232454 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18232469 GTACAATTTA
Statistics
Matches: 156, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 131 0.84
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18234631 original size:5 final size:6
Alignment explanation
Indices: 18234584--18234637 Score: 53
Period size: 5 Copynumber: 9.7 Consensus size: 6
18234574 CTTAATCACT
* * *
18234584 TTAATA TTAA-A TTAATA -TAATA TTTATC TAAATA TT-ATA TTAAT-
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
18234628 TTAATA TTAA
1 TTAATA TTAA
18234638 ATCTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
5 20 0.53
6 18 0.47
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:18234650 original size:33 final size:33
Alignment explanation
Indices: 18234587--18234650 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
18234577 AATCACTTTA
* *
18234587 ATATTAAATTAATATAATATTTATCTAAATATT
1 ATATTAAATTAATATAATATCTATCAAAATATT
*
18234620 ATATTAATTTAATATTAA-ATCTATCAAAATA
1 ATATTAAATTAATA-TAATATCTATCAAAATA
18234651 ATATTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (33 bp):
ATATTAAATTAATATAATATCTATCAAAATATT
Found at i:18235913 original size:11 final size:12
Alignment explanation
Indices: 18235884--18235916 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
18235874 ATGTCAAGTG
18235884 AATTAATTCACA
1 AATTAATTCACA
*
18235896 GATTAATTCA-A
1 AATTAATTCACA
18235907 AATTAATTCA
1 AATTAATTCA
18235917 TCTTGAGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:18246507 original size:23 final size:22
Alignment explanation
Indices: 18246481--18246523 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18246471 CGATATACAA
*
18246481 ATTAAGGAATTATTAAAAAAATG
1 ATTAA-GAATTAATAAAAAAATG
*
18246504 ATTAATAATTAATAAAAAAA
1 ATTAAGAATTAATAAAAAAA
18246524 ACTAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
ATTAAGAATTAATAAAAAAATG
Found at i:18249285 original size:17 final size:17
Alignment explanation
Indices: 18249254--18249294 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
18249244 CTTTTATCTT
*
18249254 TATTTATAATGAATT-A
1 TATTCATAATGAATTCA
18249270 TATTCATAATTGAATTCA
1 TATTCATAA-TGAATTCA
18249288 -ATTCATA
1 TATTCATA
18249295 TATACGAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 8 0.36
17 13 0.59
18 1 0.05
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (17 bp):
TATTCATAATGAATTCA
Found at i:18251999 original size:12 final size:12
Alignment explanation
Indices: 18251982--18252055 Score: 76
Period size: 12 Copynumber: 5.7 Consensus size: 12
18251972 TGGGAGTAAA
18251982 GTTTTATATTTG
1 GTTTTATATTTG
*
18251994 GTTTTATATGTTAAA
1 GTTTTATAT-TT--G
18252009 GTTTTATATTTG
1 GTTTTATATTTG
*
18252021 GTTTTATATGTTAAA
1 GTTTTATAT-TT--G
18252036 GTTTTATATTTG
1 GTTTTATATTTG
18252048 GTTTTATA
1 GTTTTATA
18252056 AGTTAATGAC
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
12 26 0.50
13 4 0.08
14 4 0.08
15 18 0.35
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (12 bp):
GTTTTATATTTG
Found at i:18252012 original size:27 final size:27
Alignment explanation
Indices: 18251978--18252061 Score: 159
Period size: 27 Copynumber: 3.1 Consensus size: 27
18251968 TTAGTGGGAG
18251978 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
18252005 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
*
18252032 TAAAGTTTTATATTTGGTTTTATAAGT
1 TAAAGTTTTATATTTGGTTTTATATGT
18252059 TAA
1 TAA
18252062 TGACATACTG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (27 bp):
TAAAGTTTTATATTTGGTTTTATATGT
Found at i:18256820 original size:28 final size:28
Alignment explanation
Indices: 18256780--18256835 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
18256770 TATGAAAATA
18256780 GCTTTAAAATGGTCAAAATCATATTTTC
1 GCTTTAAAATGGTCAAAATCATATTTTC
18256808 GCTTTAAAATGGTCAAAATCATATTTTC
1 GCTTTAAAATGGTCAAAATCATATTTTC
18256836 TCACGGTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (28 bp):
GCTTTAAAATGGTCAAAATCATATTTTC
Found at i:18260750 original size:23 final size:23
Alignment explanation
Indices: 18260720--18260766 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
18260710 ATTGAAAGAG
18260720 TTAATACTCCAAGAGGCACATGA
1 TTAATACTCCAAGAGGCACATGA
18260743 TTAATACTCCAAGAGGCACATGA
1 TTAATACTCCAAGAGGCACATGA
18260766 T
1 T
18260767 GGTTCATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (23 bp):
TTAATACTCCAAGAGGCACATGA
Found at i:18263648 original size:37 final size:38
Alignment explanation
Indices: 18263598--18263694 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 38
18263588 CGGATAGATT
18263598 CGATGAGGCGTTGGTCGCCAC-TTTGCTTCG-ACTTAGC
1 CGATGAGGCGTTGGTCGCCACTTTTGCTTCGAAC-TAGC
** * *
18263635 CGATGAGATGTTGGTCGTCACTTATTTGCTTCGAACTATC
1 CGATGAGGCGTTGGTCGCCAC-T-TTTGCTTCGAACTAGC
18263675 CGATGAGGCGTTGGTCGCCA
1 CGATGAGGCGTTGGTCGCCA
18263695 TTCGGTGTGT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
37 18 0.37
40 29 0.59
41 2 0.04
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (38 bp):
CGATGAGGCGTTGGTCGCCACTTTTGCTTCGAACTAGC
Found at i:18264053 original size:13 final size:13
Alignment explanation
Indices: 18264026--18264062 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
18264016 AGATAGTTTG
*
18264026 GTATGAATTTATAT
1 GTATG-ATTTGTAT
18264040 GTATGATTTGTAT
1 GTATGATTTGTAT
18264053 GTATGATTTG
1 GTATGATTTG
18264063 CTAATTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:18264624 original size:20 final size:21
Alignment explanation
Indices: 18264601--18264645 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
18264591 GCCCCATGGC
18264601 CATGTTC-CAGGCCACACGGG
1 CATGTTCTCAGGCCACACGGG
*
18264621 CATG-TCTTAGGCCACACGGG
1 CATGTTCTCAGGCCACACGGG
18264641 CATGT
1 CATGT
18264646 GCCCCTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.20, C:0.31, G:0.29, T:0.20
Consensus pattern (21 bp):
CATGTTCTCAGGCCACACGGG
Found at i:18268129 original size:15 final size:15
Alignment explanation
Indices: 18268109--18268165 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
18268099 AATGTTACCA
18268109 CCACCACCACCATAG
1 CCACCACCACCATAG
*
18268124 CCACCACCTCCATAG
1 CCACCACCACCATAG
** * *
18268139 TTACCACCCCCGTAG
1 CCACCACCACCATAG
18268154 CCACCACCACCA
1 CCACCACCACCA
18268166 CCATAGCTGC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.28, C:0.54, G:0.07, T:0.11
Consensus pattern (15 bp):
CCACCACCACCATAG
Found at i:18268129 original size:18 final size:18
Alignment explanation
Indices: 18268106--18268172 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 18
18268096 TCCAATGTTA
18268106 CCACCACCACCACCATAG
1 CCACCACCACCACCATAG
*
18268124 ---CCACCACCTCCATAG
1 CCACCACCACCACCATAG
** *
18268139 TTACCA-C-CC-CCGTAG
1 CCACCACCACCACCATAG
18268154 CCACCACCACCACCATAG
1 CCACCACCACCACCATAG
18268172 C
1 C
18268173 TGCCAGCACC
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
15 23 0.61
16 3 0.08
17 3 0.08
18 9 0.24
ACGTcount: A:0.28, C:0.54, G:0.07, T:0.10
Consensus pattern (18 bp):
CCACCACCACCACCATAG
Found at i:18270691 original size:19 final size:21
Alignment explanation
Indices: 18270658--18270698 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
18270648 TAAATTATTT
*
18270658 ATTTATATAATTTAAACATAA
1 ATTTATATAATTTAAAAATAA
18270679 ATTTATAT-A-TTAAAAATAA
1 ATTTATATAATTTAAAAATAA
18270698 A
1 A
18270699 AATATCACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 1 0.05
21 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTTATATAATTTAAAAATAA
Found at i:18273140 original size:29 final size:29
Alignment explanation
Indices: 18273108--18273229 Score: 88
Period size: 29 Copynumber: 4.2 Consensus size: 29
18273098 ATTATTCCTA
*
18273108 TTATTTTTATGTTTCTATTTATATTTATT
1 TTATTTTTATATTTCTATTTATATTTATT
* * * * *
18273137 TTATTATTCTAATACTA-TTATTATTTATC
1 TTATTTTTATATTTCTATTTA-TATTTATT
* * *
18273166 TAATTTTTAT-TTATCTATTTATATTTCTA
1 TTATTTTTATATT-TCTATTTATATTTATT
* * *
18273195 CTATTATTATATTTCTATTTAT-TATATTT
1 TTATTTTTATATTTCTATTTATATTTA-TT
18273224 TTATTT
1 TTATTT
18273230 CTATTTGTAT
Statistics
Matches: 67, Mismatches: 21, Indels: 10
0.68 0.21 0.10
Matches are distributed among these distances:
28 6 0.09
29 56 0.84
30 5 0.07
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (29 bp):
TTATTTTTATATTTCTATTTATATTTATT
Found at i:18273177 original size:15 final size:14
Alignment explanation
Indices: 18273109--18273219 Score: 68
Period size: 14 Copynumber: 7.6 Consensus size: 14
18273099 TTATTCCTAT
18273109 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
18273123 TATTTATATTTAT-
1 TATTTTTATTTATC
*
18273136 T-TTATTATTCTAATAC
1 TATTTTTATT-T-AT-C
*
18273152 TATTATTATTTATC
1 TATTTTTATTTATC
18273166 TAATTTTTATTTATC
1 T-ATTTTTATTTATC
* *
18273181 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
*
18273196 TATTATTATATT-TC
1 TATTTTTAT-TTATC
18273210 TATTTATTAT
1 TATTT-TTAT
18273220 ATTTTTATTT
Statistics
Matches: 78, Mismatches: 9, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
12 6 0.08
13 4 0.05
14 28 0.36
15 28 0.36
16 4 0.05
17 8 0.10
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:18273220 original size:15 final size:15
Alignment explanation
Indices: 18273184--18273229 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
18273174 ATTTATCTAT
18273184 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
18273201 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
18273216 TTATATTTTTATTT
1 TTATATTTCTATTT
18273230 CTATTTGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:18273235 original size:58 final size:57
Alignment explanation
Indices: 18273108--18273235 Score: 134
Period size: 58 Copynumber: 2.2 Consensus size: 57
18273098 ATTATTCCTA
** *
18273108 TTATTTTTATGTTTCTATTTATATTTATTTTATTATTCTAATACTATTATTATTTATC
1 TTATTTTTAT-TTTCTATTTATATTTATACTATTATTATAATACTATTATTATTTATC
* * * *
18273166 TAATTTTTATTTATCTATTTATATTTCTACTATTATTATATTTCTATTTATTATATT-T-
1 TTATTTTTATTT-TCTATTTATATTTATACTATTATTATAATACTA-TTATTAT-TTATC
*
18273224 TTATTTCTATTT
1 TTATTTTTATTT
18273236 GTATACTAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
57 2 0.03
58 46 0.79
59 8 0.14
60 2 0.03
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (57 bp):
TTATTTTTATTTTCTATTTATATTTATACTATTATTATAATACTATTATTATTTATC
Found at i:18274775 original size:4 final size:4
Alignment explanation
Indices: 18274757--18274797 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
18274747 TATAGAAAGG
* *
18274757 TAAA GAAA T-AA TAAA TAAA TAAA TAAA TGAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
18274798 TAAAGAAGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:18277601 original size:16 final size:17
Alignment explanation
Indices: 18277580--18277612 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18277570 AGCATCGTAC
*
18277580 ACGAAAA-AATGTTATT
1 ACGAAAACAAAGTTATT
18277596 ACGAAAACAAAGTTATT
1 ACGAAAACAAAGTTATT
18277613 TTACTACTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (17 bp):
ACGAAAACAAAGTTATT
Found at i:18279439 original size:20 final size:20
Alignment explanation
Indices: 18279414--18279453 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
18279404 ATTTAGCTGA
18279414 ATTGTTTATCAAAATGTCTC
1 ATTGTTTATCAAAATGTCTC
18279434 ATTGTTTATCAAAATGTCTC
1 ATTGTTTATCAAAATGTCTC
18279454 TAACTAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (20 bp):
ATTGTTTATCAAAATGTCTC
Found at i:18286455 original size:58 final size:58
Alignment explanation
Indices: 18286333--18286501 Score: 295
Period size: 58 Copynumber: 2.9 Consensus size: 58
18286323 GTGCCCACTG
* *
18286333 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
18286390 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
* *
18286448 ACTGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC
18286502 TAATCATTCG
Statistics
Matches: 107, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
57 30 0.28
58 77 0.72
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
Found at i:18286489 original size:29 final size:29
Alignment explanation
Indices: 18286340--18286498 Score: 121
Period size: 29 Copynumber: 5.5 Consensus size: 29
18286330 CTGACCGATC
* * *
18286340 TCGCACACATAGTGCTCGGTTGAA-GAAC
1 TCGCACACACAGTGCTCGGTTAAAGGAAT
** **
18286368 TCGCACACACAGTGCCTCAATT-ACCG-AT
1 TCGCACACACAGTG-CTCGGTTAAAGGAAT
*
18286396 CTCGCACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGGAAT
** **
18286426 TCGCACACACAGTGCCTCAATT-ACTG-AT
1 TCGCACACACAGTG-CTCGGTTAAAGGAAT
*
18286454 CTCGCACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGGAAT
*
18286484 TTGCACACACAGTGC
1 TCGCACACACAGTGC
18286499 CTCTAATCAT
Statistics
Matches: 100, Mismatches: 22, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
28 27 0.27
29 64 0.64
30 9 0.09
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (29 bp):
TCGCACACACAGTGCTCGGTTAAAGGAAT
Found at i:18286716 original size:43 final size:43
Alignment explanation
Indices: 18286667--18286962 Score: 441
Period size: 43 Copynumber: 6.9 Consensus size: 43
18286657 CACCAGCATT
*
18286667 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* * * *
18286710 AAGCCTGCTAGGCACGAAAGCCTGAATACACATCACCGACACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
*
18286753 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* *
18286796 AAGCCTGCTAGGCACGAAGGCCCAAATACACATCATCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* ** *
18286839 AAGCCTGCAAGGCATAAAGGCTCGAATACACATCATCC-GCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCA-CCGGCACG
* *
18286882 AAGCCTGCTAGGCACGAAGGCCTGAATACACATTACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
*
18286925 CAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCG
18286963 AGTTTCATGC
Statistics
Matches: 223, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 2 0.01
43 220 0.99
44 1 0.00
ACGTcount: A:0.32, C:0.33, G:0.23, T:0.12
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
Found at i:18293140 original size:20 final size:21
Alignment explanation
Indices: 18293100--18293140 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18293090 ACCACGGCCT
18293100 CTCTGTGACTGCTGTACTACC
1 CTCTGTGACTGCTGTACTACC
* *
18293121 CTCTGTGGCTG-TGTAGTACC
1 CTCTGTGACTGCTGTACTACC
18293141 AGTACCCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.12, C:0.29, G:0.24, T:0.34
Consensus pattern (21 bp):
CTCTGTGACTGCTGTACTACC
Found at i:18306995 original size:33 final size:33
Alignment explanation
Indices: 18306953--18307019 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
18306943 TCTGATAAAT
*
18306953 TGAATTGAATTAAATTATTGTATAG-TTCGAAAA
1 TGAATTGAATTAAATTATTATATAGATT-GAAAA
*
18306986 TGAATTGAATTGAATTATTATATAGATTGAAAA
1 TGAATTGAATTAAATTATTATATAGATTGAAAA
18307019 T
1 T
18307020 TGGACCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.43, C:0.01, G:0.15, T:0.40
Consensus pattern (33 bp):
TGAATTGAATTAAATTATTATATAGATTGAAAA
Found at i:18310281 original size:3 final size:3
Alignment explanation
Indices: 18310273--18310300 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18310263 ATCTATATAG
18310273 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18310301 CCTAATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18320289 original size:25 final size:24
Alignment explanation
Indices: 18320254--18320304 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
18320244 CATACCGCAA
18320254 CTCTTTATGAGCATCCTGATATAGG
1 CTCTTTATGAGCATCCTGATAT-GG
* *
18320279 CTCTTTGTGAGCTTCCTGATATGG
1 CTCTTTATGAGCATCCTGATATGG
18320303 CT
1 CT
18320305 TACTTGAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (24 bp):
CTCTTTATGAGCATCCTGATATGG
Found at i:18321343 original size:5 final size:5
Alignment explanation
Indices: 18321333--18321404 Score: 103
Period size: 5 Copynumber: 14.2 Consensus size: 5
18321323 AATTATGTTT
18321333 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
18321382 TTATA TTATTA TTATA TATATA T
1 TTATA TTA-TA TTATA T-TATA T
18321405 GACAAAGAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 9
0.87 0.00 0.13
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 43 0.69
6 15 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Done.