Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007952.1 Hibiscus syriacus cultivar Beakdansim tig00110377_pilon, 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: 3169409
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 16
Found at i:1875342 original size:43 final size:43
Alignment explanation
Indices: 1875281--1875368 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
1875271 GTGCTTCAAG
1875281 TGGTTCTTTGGATATCTCGACGTTTTTAGGGTTAATTTTTCCA
1 TGGTTCTTTGGATATCTCGACGTTTTTAGGGTTAATTTTTCCA
*
1875324 TGGTTCTTTGGATATCTCGGCGTTTTTAGGGTTAATTTTTCCA
1 TGGTTCTTTGGATATCTCGACGTTTTTAGGGTTAATTTTTCCA
1875367 TG
1 TG
1875369 ATTGCTTTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.15, C:0.14, G:0.23, T:0.49
Consensus pattern (43 bp):
TGGTTCTTTGGATATCTCGACGTTTTTAGGGTTAATTTTTCCA
Found at i:1875804 original size:18 final size:18
Alignment explanation
Indices: 1875781--1875827 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
1875771 CTTTGTGGTC
1875781 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
1875799 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
1875817 GAAGCGTGAGA
1 GAAGCGTGAGA
1875828 CTAATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (18 bp):
GAAGCGTGAGATTCGTCT
Found at i:1879224 original size:8 final size:8
Alignment explanation
Indices: 1879213--1879548 Score: 233
Period size: 8 Copynumber: 44.8 Consensus size: 8
1879203 ATTATTTAAC
1879213 TTTAATGA
1 TTTAATGA
1879221 TTTAAT-A
1 TTTAATGA
* *
1879228 -ATAATTA
1 TTTAATGA
1879235 CTTTAATGA
1 -TTTAATGA
1879244 TTTAAT--
1 TTTAATGA
1879250 TTTAATGA
1 TTTAATGA
1879258 TTTAATGA
1 TTTAATGA
*
1879266 TTTAA--C
1 TTTAATGA
1879272 TTTAATGA
1 TTTAATGA
*
1879280 TTTAA--C
1 TTTAATGA
1879286 TTTAATGA
1 TTTAATGA
1879294 TTTAAT-A
1 TTTAATGA
* *
1879301 -ATAATTA
1 TTTAATGA
1879308 CTTTAATGA
1 -TTTAATGA
1879317 TTTAATGA
1 TTTAATGA
1879325 TTTAAT-A
1 TTTAATGA
* *
1879332 -ATAATTA
1 TTTAATGA
1879339 TTTTAATGA
1 -TTTAATGA
1879348 TTTAATGA
1 TTTAATGA
1879356 TTTAATGA
1 TTTAATGA
1879364 TTTAATGA
1 TTTAATGA
1879372 TTTAATGA
1 TTTAATGA
1879380 TTTAAT-A
1 TTTAATGA
* *
1879387 -ATAATTA
1 TTTAATGA
1879394 CTTTAATGA
1 -TTTAATGA
*
1879403 TTTAA--C
1 TTTAATGA
*
1879409 TTTAATGC
1 TTTAATGA
1879417 TTTAAT-A
1 TTTAATGA
* *
1879424 -ATAATTA
1 TTTAATGA
1879431 CTTTAATGA
1 -TTTAATGA
1879440 TTTAATGA
1 TTTAATGA
1879448 TTTAATGA
1 TTTAATGA
1879456 TTTAATGA
1 TTTAATGA
1879464 TTTAAT-A
1 TTTAATGA
* *
1879471 -ATAATTA
1 TTTAATGA
1879478 CTTTAATGA
1 -TTTAATGA
1879487 TTTAAT--
1 TTTAATGA
*
1879493 TTTAATAA
1 TTTAATGA
1879501 TTTAAT-A
1 TTTAATGA
* *
1879508 -ATAATTA
1 TTTAATGA
*
1879515 CTTAAT--
1 TTTAATGA
1879521 TTTAATGA
1 TTTAATGA
1879529 TTTAAT--
1 TTTAATGA
*
1879535 TTTAATAA
1 TTTAATGA
1879543 TTTAAT
1 TTTAAT
1879549 AATAATTACT
Statistics
Matches: 267, Mismatches: 27, Indels: 68
0.74 0.07 0.19
Matches are distributed among these distances:
6 66 0.25
7 13 0.05
8 158 0.59
9 30 0.11
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (8 bp):
TTTAATGA
Found at i:1879324 original size:31 final size:31
Alignment explanation
Indices: 1879250--1879453 Score: 214
Period size: 31 Copynumber: 6.7 Consensus size: 31
1879240 ATGATTTAAT
* *
1879250 TTTAATGATTTAATGATTTAACT-TTAATGA-
1 TTTAATGATTTAATGATTTAA-TAATAATTAC
*
1879280 TTTAA--CTTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATGATTTAATAATAATTAC
*
1879309 TTTAATGATTTAATGATTTAATAATAATTAT
1 TTTAATGATTTAATGATTTAATAATAATTAC
*
1879340 TTTAATGATTTAATGA--T--T--TAATGA-
1 TTTAATGATTTAATGATTTAATAATAATTAC
1879364 TTTAATGATTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATGATTTAATAATAATTAC
*
1879395 TTTAATGATTTAACTTTAATGCTTTAATAATAATTAC
1 TTTAATG-----A-TTTAATGATTTAATAATAATTAC
1879432 TTTAATGATTTAATGATTTAAT
1 TTTAATGATTTAATGATTTAAT
1879454 GATTTAATGA
Statistics
Matches: 148, Mismatches: 9, Indels: 33
0.78 0.05 0.17
Matches are distributed among these distances:
24 16 0.11
25 5 0.03
26 1 0.01
27 2 0.01
28 19 0.13
29 6 0.04
30 10 0.07
31 58 0.39
32 1 0.01
36 1 0.01
37 29 0.20
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.50
Consensus pattern (31 bp):
TTTAATGATTTAATGATTTAATAATAATTAC
Found at i:1879443 original size:84 final size:81
Alignment explanation
Indices: 1879178--1879559 Score: 466
Period size: 84 Copynumber: 4.8 Consensus size: 81
1879168 TCGAGTACAT
* *
1879178 ATTTAATAATAATTATTTAA-ATTTAATTATTTAA-CTTTAATGATTTAATAATAATTACTTTAA
1 ATTTAATAATAATTATTTAATATTTAATGATTTAATATTTAATGATTTAATAATAATTACTTTAA
*
1879241 TGATTTAATTTTAATG
66 TGATTTAATTTTAATA
* * *
1879257 A--T--T--TAATGATTTAA-CTTTAATGATTTAA-CTTTAATGATTTAATAATAATTACTTTAA
1 ATTTAATAATAATTATTTAATATTTAATGATTTAATATTTAATGATTTAATAATAATTACTTTAA
1879314 TGATTTAATGATTTAATA
66 TGATTTAAT--TTTAATA
** *
1879332 ATAATT-ATTTTAATGATTTAATGATTTAATGATTTAATGATTTAATGATTTAATAATAATTACT
1 AT--TTAATAATAATTATTTAAT-ATTTAATGATTTAAT-ATTTAATGATTTAATAATAATTACT
* *
1879396 TTAATGATTTAACTTTAATG
62 TTAATGATTTAATTTTAATA
*
1879416 CTTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATGATTTAATAATAATTACTT
1 ATTTAATAATAATTA-TTTAAT-ATTTAATGATTTAAT-ATTTAATGATTTAATAATAATTACTT
1879481 TAATGATTTAATTTTAATA
63 TAATGATTTAATTTTAATA
* *
1879500 ATTTAATAATAATTACTTAAT-TTTAATGATTTAAT-TTTAATAATTTAATAATAATTACTT
1 ATTTAATAATAATTATTTAATATTTAATGATTTAATATTTAATGATTTAATAATAATTACTT
1879560 GACTTTAATG
Statistics
Matches: 271, Mismatches: 17, Indels: 30
0.85 0.05 0.09
Matches are distributed among these distances:
73 60 0.22
75 8 0.03
77 1 0.00
79 26 0.10
80 1 0.00
81 14 0.05
82 13 0.05
83 12 0.04
84 100 0.37
86 36 0.13
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (81 bp):
ATTTAATAATAATTATTTAATATTTAATGATTTAATATTTAATGATTTAATAATAATTACTTTAA
TGATTTAATTTTAATA
Found at i:1879506 original size:37 final size:37
Alignment explanation
Indices: 1879356--1879559 Score: 219
Period size: 37 Copynumber: 5.1 Consensus size: 37
1879346 GATTTAATGA
*
1879356 TTTAATGATTTAATGATTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAAT--TTTAATAATTTAATAATAATTAC
* **
1879395 TTTAATGATTTAACTTTAATGCTTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
1879432 TTTAATGATTTAATGATTTAATGATTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAAT--TTT-A--A--T-A--ATTTAATAATAATTAC
1879479 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
1879516 TTAATTTTAATGATTTAATTTTAATAATTTAATAATAATTAC
1 -----TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
1879558 TT
1 TT
1879560 GACTTTAATG
Statistics
Matches: 145, Mismatches: 5, Indels: 32
0.80 0.03 0.18
Matches are distributed among these distances:
37 53 0.37
39 17 0.12
40 2 0.01
42 39 0.27
44 2 0.01
45 3 0.02
47 29 0.20
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (37 bp):
TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
Found at i:1879549 original size:8 final size:8
Alignment explanation
Indices: 1879178--1879551 Score: 133
Period size: 8 Copynumber: 49.2 Consensus size: 8
1879168 TCGAGTACAT
1879178 ATTTAATA
1 ATTTAATA
*
1879186 A--TAATT
1 ATTTAATA
1879192 ATTT-A-A
1 ATTTAATA
*
1879198 ATTTAATT
1 ATTTAATA
1879206 ATTT-A-A
1 ATTTAATA
* *
1879212 CTTTAATG
1 ATTTAATA
1879220 ATTTAATA
1 ATTTAATA
1879228 A--TAATTA
1 ATTTAA-TA
* *
1879235 CTTTAATG
1 ATTTAATA
1879243 ATTTAAT-
1 ATTTAATA
*
1879250 -TTTAATG
1 ATTTAATA
*
1879257 ATTTAATG
1 ATTTAATA
1879265 ATTT-A-A
1 ATTTAATA
* *
1879271 CTTTAATG
1 ATTTAATA
1879279 ATTT-A-A
1 ATTTAATA
* *
1879285 CTTTAATG
1 ATTTAATA
1879293 ATTTAATA
1 ATTTAATA
1879301 A--TAATTA
1 ATTTAA-TA
* *
1879308 CTTTAATG
1 ATTTAATA
*
1879316 ATTTAATG
1 ATTTAATA
1879324 ATTTAATA
1 ATTTAATA
1879332 A--TAATTA
1 ATTTAA-TA
* *
1879339 TTTTAATG
1 ATTTAATA
*
1879347 ATTTAATG
1 ATTTAATA
*
1879355 ATTTAATG
1 ATTTAATA
*
1879363 ATTTAATG
1 ATTTAATA
*
1879371 ATTTAATG
1 ATTTAATA
1879379 ATTTAATA
1 ATTTAATA
1879387 A--TAATTA
1 ATTTAA-TA
* *
1879394 CTTTAATG
1 ATTTAATA
1879402 ATTT-A-A
1 ATTTAATA
* *
1879408 CTTTAATG
1 ATTTAATA
*
1879416 CTTTAATA
1 ATTTAATA
1879424 A--TAATTA
1 ATTTAA-TA
* *
1879431 CTTTAATG
1 ATTTAATA
*
1879439 ATTTAATG
1 ATTTAATA
*
1879447 ATTTAATG
1 ATTTAATA
*
1879455 ATTTAATG
1 ATTTAATA
1879463 ATTTAATA
1 ATTTAATA
1879471 A--TAATTA
1 ATTTAA-TA
* *
1879478 CTTTAATG
1 ATTTAATA
1879486 ATTTAAT-
1 ATTTAATA
1879493 -TTTAATA
1 ATTTAATA
1879500 ATTTAATA
1 ATTTAATA
*
1879508 ATAATTACTTA
1 AT--TTA-ATA
*
1879519 ATTTTAATG
1 A-TTTAATA
1879528 ATTTAAT-
1 ATTTAATA
1879535 -TTTAATA
1 ATTTAATA
1879542 ATTTAATA
1 ATTTAATA
1879550 AT
1 AT
1879552 AATTACTTGA
Statistics
Matches: 280, Mismatches: 46, Indels: 80
0.69 0.11 0.20
Matches are distributed among these distances:
6 57 0.20
7 22 0.08
8 171 0.61
9 20 0.07
10 6 0.02
11 3 0.01
12 1 0.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.51
Consensus pattern (8 bp):
ATTTAATA
Found at i:1879580 original size:14 final size:13
Alignment explanation
Indices: 1879187--1879590 Score: 167
Period size: 14 Copynumber: 29.9 Consensus size: 13
1879177 TATTTAATAA
*
1879187 TAATTATTTAAATT
1 TAATGATTT-AATT
*
1879201 TAATTATTTAACTT
1 TAATGATTTAA-TT
1879215 TAATGATTTAA--
1 TAATGATTTAATT
* *
1879226 TAAT-AATTACTT
1 TAATGATTTAATT
1879238 TAATGATTTAATTT
1 TAATGATTTAA-TT
1879252 TAATG-----ATT
1 TAATGATTTAATT
1879260 TAATGATTTAACTT
1 TAATGATTTAA-TT
1879274 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
1879288 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
1879302 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
1879319 TAATGATTTAA--
1 TAATGATTTAATT
* *
1879330 TAAT-AATTATTT
1 TAATGATTTAATT
1879342 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
1879358 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
1879374 TAATGATTTAA--
1 TAATGATTTAATT
* *
1879385 TAAT-AATTACTT
1 TAATGATTTAATT
1879397 TAATGATTTAACTT
1 TAATGATTTAA-TT
* *
1879411 TAATGCTTTAATAA
1 TAATGATTTAAT-T
*
1879425 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
1879442 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
1879458 TAATGATTTAA--
1 TAATGATTTAATT
* *
1879469 TAAT-AATTACTT
1 TAATGATTTAATT
1879481 TAATGATTTAATTT
1 TAATGATTTAA-TT
* *
1879495 TAATAATTTAATAA
1 TAATGATTTAAT-T
* *
1879509 TAATTACTTAATTT
1 TAATGATTTAA-TT
1879523 TAATGATTTAATTT
1 TAATGATTTAA-TT
* *
1879537 TAATAATTTAATAA
1 TAATGATTTAAT-T
* * *
1879551 TAATTACTTGACTT
1 TAATGA-TTTAATT
1879565 TAATGATTTATATT
1 TAATGATTTA-ATT
* *
1879579 TACTGATATAAT
1 TAATGATTTAAT
1879591 AATAGTAAAT
Statistics
Matches: 305, Mismatches: 45, Indels: 81
0.71 0.10 0.19
Matches are distributed among these distances:
8 7 0.02
9 1 0.00
10 16 0.05
11 16 0.05
12 16 0.05
13 30 0.10
14 140 0.46
15 14 0.05
16 51 0.17
17 10 0.03
18 4 0.01
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.50
Consensus pattern (13 bp):
TAATGATTTAATT
Found at i:1879591 original size:42 final size:41
Alignment explanation
Indices: 1879178--1879594 Score: 345
Period size: 42 Copynumber: 10.3 Consensus size: 41
1879168 TCGAGTACAT
* * * *
1879178 ATTTAATAATAATTATTTAAATTTAATTATTTAACTTTAATG
1 ATTTAATAATAATTACTT-ACTTTAATGATTTAATTTTAATG
1879220 ATTTAATAAT-A--A-TTACTTTAATGATTTAATTTTAATG
1 ATTTAATAATAATTACTTACTTTAATGATTTAATTTTAATG
* *
1879257 ATTTAATGAT--TTA---ACTTTAATGATTTAACTTTAATG
1 ATTTAATAATAATTACTTACTTTAATGATTTAATTTTAATG
* ** *
1879293 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATAATAATT
1 ATTTAATAATAATTAC-TT-A--CTTTAATGATTTAATTTTAATG
* * *
1879338 ATTT--TAATGATTTAATGA-TTTAATGATTTAATGATTTAATG
1 ATTTAATAAT-AATTACTTACTTTAATGATTTAAT--TTTAATG
*
1879379 ATTTAATAAT-A--A-TTACTTTAATGATTTAACTTTAATG
1 ATTTAATAATAATTACTTACTTTAATGATTTAATTTTAATG
* *
1879416 CTTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATG
1 ATTTAATAATAATTAC-TT-A--CTTTAATGATTTAAT--TTTAATG
*
1879463 ATTTAATAAT-A--A-TTACTTTAATGATTTAATTTTAATA
1 ATTTAATAATAATTACTTACTTTAATGATTTAATTTTAATG
* *
1879500 ATTTAATAATAATTACTTAATTTTAATGATTTAATTTTAATA
1 ATTTAATAATAATTACTT-ACTTTAATGATTTAATTTTAATG
*
1879542 ATTTAATAATAATTACTTGACTTTAATGATTT-ATATTTACTG
1 ATTTAATAATAATTACTT-ACTTTAATGATTTAAT-TTTAATG
*
1879584 ATATAATAATA
1 ATTTAATAATA
1879595 GTAAATATAT
Statistics
Matches: 310, Mismatches: 32, Indels: 66
0.76 0.08 0.16
Matches are distributed among these distances:
36 31 0.10
37 61 0.20
38 10 0.03
39 43 0.14
40 2 0.01
41 14 0.05
42 82 0.26
43 11 0.04
44 5 0.02
45 34 0.11
46 1 0.00
47 16 0.05
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (41 bp):
ATTTAATAATAATTACTTACTTTAATGATTTAATTTTAATG
Found at i:1882093 original size:172 final size:173
Alignment explanation
Indices: 1881799--1882157 Score: 560
Period size: 172 Copynumber: 2.1 Consensus size: 173
1881789 CATCAAATAT
* **
1881799 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTTTCAATTTAATCACTAAATT
1 AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
*
1881864 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTAATACTAAATTCAAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
* * *
1881929 TTTTTATAATTTACTCTAATTTCTTAAATTCCTCAAATTTTGC
131 TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
* *
1881972 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAAT
1 AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCAC-TAAAT
* * *
1882036 TT-TAAATTCTTTCTAATTTAACCAATTAAGCATACTAATACTAAATTCCAGCATAGTATAGCAA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAA
* *
1882100 CTTTTAATAATTTACTCTTATTCCTTAAATTCCTTAAATTTTAC
130 CTTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
*
1882144 AAAACGGTCCCTAA
1 AAAACGATCCCTAA
1882158 AACTTTACAA
Statistics
Matches: 170, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
172 111 0.65
173 59 0.35
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (173 bp):
AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
Found at i:1882211 original size:40 final size:40
Alignment explanation
Indices: 1882156--1882238 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
1882146 AACGGTCCCT
1882156 AAAACTTTACAATGTTCCAAAATGGTCCCAACCTTATTTC
1 AAAACTTTACAATGTTCCAAAATGGTCCCAACCTTATTTC
1882196 AAAACTTTACAATGTTCCAAAATGGTCCCAACCTTATTTC
1 AAAACTTTACAATGTTCCAAAATGGTCCCAACCTTATTTC
1882236 AAA
1 AAA
1882239 TTATGTAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (40 bp):
AAAACTTTACAATGTTCCAAAATGGTCCCAACCTTATTTC
Found at i:1882681 original size:23 final size:23
Alignment explanation
Indices: 1882655--1882698 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
1882645 AGTTGCATGC
1882655 CCCCCACATGCAGACGTGCAGGA
1 CCCCCACATGCAGACGTGCAGGA
1882678 CCCCCACATGCAGACGTGCAG
1 CCCCCACATGCAGACGTGCAG
1882699 CCCTGCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.41, G:0.25, T:0.09
Consensus pattern (23 bp):
CCCCCACATGCAGACGTGCAGGA
Found at i:1882727 original size:22 final size:22
Alignment explanation
Indices: 1882702--1882765 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
1882692 CGTGCAGCCC
*
1882702 TGCAGGACCCGTGATTTCTCCT
1 TGCAGAACCCGTGATTTCTCCT
* *
1882724 TGCAGAACCCGTGCTCTCTCCT
1 TGCAGAACCCGTGATTTCTCCT
1882746 TGCAGAACCCGTGATTTCTC
1 TGCAGAACCCGTGATTTCTC
1882766 ACGTCCAGTC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.16, C:0.34, G:0.20, T:0.30
Consensus pattern (22 bp):
TGCAGAACCCGTGATTTCTCCT
Found at i:1882830 original size:34 final size:34
Alignment explanation
Indices: 1882787--1882867 Score: 153
Period size: 34 Copynumber: 2.4 Consensus size: 34
1882777 CATGCACAGC
1882787 ACTGAAGACGCCGAGATTTCCTACGAAGAATCCA
1 ACTGAAGACGCCGAGATTTCCTACGAAGAATCCA
*
1882821 ACTGAAGACGCCGAGATTTCCTATGAAGAATCCA
1 ACTGAAGACGCCGAGATTTCCTACGAAGAATCCA
1882855 ACTGAAGACGCCG
1 ACTGAAGACGCCG
1882868 GGATATCCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (34 bp):
ACTGAAGACGCCGAGATTTCCTACGAAGAATCCA
Found at i:1886972 original size:17 final size:14
Alignment explanation
Indices: 1886941--1886970 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1886931 TTCTTCGATA
1886941 TTAAAAATAAATAT
1 TTAAAAATAAATAT
1886955 TTAAAAAT-AATAT
1 TTAAAAATAAATAT
1886968 TTA
1 TTA
1886971 TTATATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAAAAATAAATAT
Found at i:1888393 original size:3 final size:3
Alignment explanation
Indices: 1888385--1888481 Score: 117
Period size: 3 Copynumber: 33.0 Consensus size: 3
1888375 TTAATATATT
* *
1888385 TAA TAA TAA -AA -AA AAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
1888431 TGA TAA TAA TAT TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1888479 TAA
1 TAA
1888482 AATGGATAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
2 4 0.05
3 76 0.95
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1888489 original size:12 final size:11
Alignment explanation
Indices: 1888397--1888495 Score: 58
Period size: 12 Copynumber: 8.5 Consensus size: 11
1888387 ATAATAAAAA
*
1888397 AAAATAATAAT
1 AAAATGATAAT
*
1888408 AATAATAATAAT
1 AA-AATGATAAT
*
1888420 AAAAATAATAAT
1 -AAAATGATAAT
* * *
1888432 GATAATAATATT
1 -AAAATGATAAT
1888444 AATAATGATAAT
1 AA-AATGATAAT
1888456 AATAAT-ATTAAT
1 AA-AATGA-TAAT
1888468 AATAATGATAAT
1 AA-AATGATAAT
1888480 AAAATGGATAA-
1 AAAAT-GATAAT
1888491 AAAAT
1 AAAAT
1888496 AGTATCTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
11 12 0.16
12 61 0.80
13 3 0.04
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (11 bp):
AAAATGATAAT
Found at i:1888935 original size:114 final size:113
Alignment explanation
Indices: 1888730--1889509 Score: 1233
Period size: 114 Copynumber: 6.8 Consensus size: 113
1888720 TCTTGATGAG
*
1888730 TTCTTCTCATTATGAACTTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-C
1 TTCTTCTCATTATGAAC-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTC
* * * *
1888794 TGGTAATGTTGATCCATCAACTGATGAATTCAAGCAAAAGGTTGAACAAA
64 TGGAAAAGATGATCCATCAATTGATGAATTCAAGCAAAAGGTTGAACAAA
*
1888844 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * *
1888909 GAAAAGAATGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAACAAA
66 GAAAAG-ATGATCCATCAATTGATGAATTCAAGCAAAAGGTTGAACAAA
1888958 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
1889023 GAAACGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAG
66 GAAAAGATGATCCATCAA-TTGATGAATTCAAGCAAAAGGTTGAACAAA
*
1889072 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * *
1889137 GAAAAGAATGATCCATCAAGTGATGAATTTAAGCAAAAGGTTGAACAAG
66 GAAAAG-ATGATCCATCAATTGATGAATTCAAGCAAAAGGTTGAACAAA
1889186 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * * *
1889251 GAAAGGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGATGATCCATCAATTGATGAATTCAAGCAAAAGGTTGAACAAA
*
1889299 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
1889364 GAAACGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAG
66 GAAAAGATGATCCATCAA-TTGATGAATTCAAGCAAAAGGTTGAACAAA
*
1889413 TTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCT
1 TTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
1889477 GGAAACA-ATGATCCATCAATTTGATGAATTCAA
65 GGAAA-AGATGATCCATCAA-TTGATGAATTCAA
1889510 ATCTTTGCTA
Statistics
Matches: 621, Mismatches: 38, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
112 1 0.00
113 176 0.28
114 432 0.70
115 12 0.02
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGATGATCCATCAATTGATGAATTCAAGCAAAAGGTTGAACAAA
Found at i:1889366 original size:341 final size:340
Alignment explanation
Indices: 1888728--1889509 Score: 1309
Period size: 341 Copynumber: 2.3 Consensus size: 340
1888718 GCTCTTGATG
*
1888728 AGTTCTTCTCATTATGAACTTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC
1 AGTTCTTCTCATTATGAAC--TTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTT-C
* *
1888793 -CTGGTAATG-TTGATCCATCAACTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTA
63 TCTGG-AAAGAATGATCCATCAACTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTA
1888856 TGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGAATGAT
127 TGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGAATGAT
* * *
1888921 CCATCAAGTGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCT
192 CCACCAAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCT
1888986 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAACGATGATCCATCAATTTGATGAAT
257 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAACGATGATCCATCAATTTGATGAAT
1889051 TCAAGCAAAAGGTTGAACA
322 TCAAGCAAAAGGTTGAACA
1889070 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTT-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
* * *
1889135 TGGAAAAGAATGATCCATCAAGTGATGAATTTAAGCAAAAGGTTGAACAAGTTCTTCTCATTATG
65 TGG-AAAGAATGATCCATCAACTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATG
* *
1889200 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG-AAAGGATGATCC
129 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGAATGATCC
* *** *
1889264 ACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
194 ACCAAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
1889329 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAACGATGATCCATCAATTTGATGAATTC
259 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAACGATGATCCATCAATTTGATGAATTC
1889394 AAGCAAAAGGTTGAACA
324 AAGCAAAAGGTTGAACA
1889411 AGTTCTTCTCATTATGAACTTTCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
* *
1889476 TGGAAACAATGATCCATCAATTTGATGAATTCAA
65 TGGAAAGAATGATCCATCAA-CTGATGAATTCAA
1889510 ATCTTTGCTA
Statistics
Matches: 415, Mismatches: 20, Indels: 11
0.93 0.04 0.02
Matches are distributed among these distances:
340 20 0.05
341 273 0.66
342 122 0.29
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (340 bp):
AGTTCTTCTCATTATGAACTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCT
GGAAAGAATGATCCATCAACTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGAATGATCCAC
CAAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTT
CAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAACGATGATCCATCAATTTGATGAATTCAA
GCAAAAGGTTGAACA
Found at i:1890200 original size:83 final size:83
Alignment explanation
Indices: 1890061--1890259 Score: 380
Period size: 83 Copynumber: 2.4 Consensus size: 83
1890051 ATGCACTTCT
* *
1890061 TCAGATCAAATAACTCAAAGAACGCTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCA
1 TCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCA
1890126 ATGCTTGATTCTGTCTAA
66 ATGCTTGATTCTGTCTAA
1890144 TCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCA
1 TCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCA
1890209 ATGCTTGATTCTGTCTAA
66 ATGCTTGATTCTGTCTAA
1890227 TCAGATCAGATAACTCAAAGAACACTTCCAGAA
1 TCAGATCAGATAACTCAAAGAACACTTCCAGAA
1890260 AATACTATGT
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 114 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (83 bp):
TCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCA
ATGCTTGATTCTGTCTAA
Found at i:1890295 original size:52 final size:52
Alignment explanation
Indices: 1890209--1890637 Score: 711
Period size: 52 Copynumber: 8.2 Consensus size: 52
1890199 TCTAAACTCA
* * *
1890209 ATGCT-TGATTCTGTCTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAA
1 ATGCTATG-TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* *
1890261 ATACTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCTAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
1890313 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCTAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1890365 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1890417 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* *
1890469 ATGCTATGTTATGAT-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAA
1 ATGCTATGTTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
1890521 ATGCTATTTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* *
1890573 ATGCTATGTTATGAT-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAA
1 ATGCTATGTTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1890625 ATGCTATGTTCTG
1 ATGCTATGTTCTG
1890638 ATGATTTTCC
Statistics
Matches: 357, Mismatches: 16, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
51 1 0.00
52 352 0.99
53 4 0.01
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (52 bp):
ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
Found at i:1891295 original size:16 final size:16
Alignment explanation
Indices: 1891259--1891296 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1891249 TGAATTTCCA
1891259 AAAATAAATTGAATCT
1 AAAATAAATTGAATCT
*
1891275 CAAATAAATTGAA-CTT
1 AAAATAAATTGAATC-T
1891291 AAAATA
1 AAAATA
1891297 GATAGAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 1 0.05
16 18 0.95
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAATAAATTGAATCT
Found at i:1891648 original size:14 final size:12
Alignment explanation
Indices: 1891614--1891696 Score: 70
Period size: 12 Copynumber: 7.1 Consensus size: 12
1891604 CTTGACCCCC
1891614 TTTC-TTTTTCT
1 TTTCTTTTTTCT
*
1891625 TCTCTTTTTTTCAT
1 TTTC-TTTTTTC-T
1891639 TTTCTATTTTTTCT
1 TTTC--TTTTTTCT
1891653 TTTC--TTTT-T
1 TTTCTTTTTTCT
1891662 TTTC--TTTTCT
1 TTTCTTTTTTCT
*
1891672 TTTCTTTCTTCT
1 TTTCTTTTTTCT
1891684 TTTCTTTTTTCT
1 TTTCTTTTTTCT
1891696 T
1 T
1891697 CAAGCATAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
9 9 0.15
10 9 0.15
11 3 0.05
12 17 0.28
13 6 0.10
14 9 0.15
15 7 0.12
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTCTTTTTTCT
Found at i:1891651 original size:28 final size:26
Alignment explanation
Indices: 1891618--1891692 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 26
1891608 ACCCCCTTTC
1891618 TTTTTCTTCTCTTTTTTTCATTTTCTAT
1 TTTTTCTTCTCTTTTTTTC-TTTTCT-T
*
1891646 TTTTTCTTTTCTTTTTTTTCTTTTCTT
1 TTTTTCTTCTC-TTTTTTTCTTTTCTT
*
1891673 TTCTTTCTTCTTTTCTTTTT
1 TT-TTTCTTCTCTT-TTTTT
1891693 TCTTCAAGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
28 28 0.68
29 8 0.20
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTTTCTTCTCTTTTTTTCTTTTCTT
Found at i:1891657 original size:5 final size:5
Alignment explanation
Indices: 1891614--1891691 Score: 74
Period size: 5 Copynumber: 15.6 Consensus size: 5
1891604 CTTGACCCCC
* *
1891614 TTTCT TTT-T CTTCT CTTT-T TTTCAT TTTCT ATT-T TTTCT TTTCT TTT-T
1 TTTCT TTTCT TTTCT -TTTCT TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT
1891662 TTTCT TTTCT TTTCTT TCTTCT TTTCT TTT
1 TTTCT TTTCT TTTC-T T-TTCT TTTCT TTT
1891692 TTCTTCAAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
4 13 0.21
5 34 0.56
6 11 0.18
7 3 0.05
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:1891694 original size:19 final size:19
Alignment explanation
Indices: 1891614--1891696 Score: 66
Period size: 19 Copynumber: 4.3 Consensus size: 19
1891604 CTTGACCCCC
*
1891614 TTTCTTT-TTCTTCTCTTTT
1 TTTCTTTCTTCTTTTC-TTT
*
1891633 TTTCATTTTCTATTTTTTCTTT
1 TTTC--TTTCT-TCTTTTCTTT
*
1891655 TCTT-TTTTTTCTTTTC--T
1 T-TTCTTTCTTCTTTTCTTT
1891672 TTTCTTTCTTCTTTTCTTT
1 TTTCTTTCTTCTTTTCTTT
1891691 TTTCTT
1 TTTCTT
1891697 CAAGCATAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
16 2 0.04
17 13 0.25
19 17 0.33
20 4 0.08
21 3 0.06
22 5 0.10
23 7 0.14
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTCTTTCTTCTTTTCTTT
Found at i:1903810 original size:26 final size:25
Alignment explanation
Indices: 1903756--1903810 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
1903746 AGCTGTTGTT
* *
1903756 TCTCTGTTTTTTTTTCGGTTCTATT
1 TCTCTCTTTTTTTTTCGGTTCTATG
* *
1903781 TCTCTCTTTTTTTTTCTGTTTCTGTG
1 TCTCTCTTTTTTTTTC-GGTTCTATG
1903807 TCTC
1 TCTC
1903811 GTTCTGTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.02, C:0.20, G:0.11, T:0.67
Consensus pattern (25 bp):
TCTCTCTTTTTTTTTCGGTTCTATG
Found at i:1904281 original size:3 final size:3
Alignment explanation
Indices: 1904273--1904371 Score: 110
Period size: 3 Copynumber: 33.0 Consensus size: 3
1904263 TTTAATATAT
* * *
1904273 TAA TAA TAA -AA AAA AAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * * * *
1904321 TGA TAA TAA TAT TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1904369 TAA
1 TAA
1904372 AATGGATAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.02
3 76 0.94
4 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1904379 original size:12 final size:11
Alignment explanation
Indices: 1904289--1904386 Score: 55
Period size: 12 Copynumber: 8.9 Consensus size: 11
1904279 TAAAAAAAAA
*
1904289 ATAATAATAATA
1 ATAATAA-AATG
*
1904301 ATAATAATAATA
1 ATAATAA-AATG
*
1904313 AAAAT-AAATG
1 ATAATAAAATG
*
1904323 ATAATAATAT-
1 ATAATAAAATG
1904333 -TAAT--AATG
1 ATAATAAAATG
1904341 ATAATAATAAT-
1 ATAATAA-AATG
1904352 ATTAATAATAATG
1 A-TAATAA-AATG
1904365 ATAATAAAATGG
1 ATAATAAAAT-G
*
1904377 ATAAAAAAAT
1 ATAATAAAAT
1904387 AGTATCTTCA
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
7 2 0.03
9 8 0.11
10 7 0.10
11 8 0.11
12 45 0.63
13 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (11 bp):
ATAATAAAATG
Found at i:1904520 original size:48 final size:48
Alignment explanation
Indices: 1904464--1904563 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
1904454 CCATAGTTAC
1904464 TTATAATTCAATGGGCCAAATAATGACTTTATATGATACAAATTCTTG
1 TTATAATTCAATGGGCCAAATAATGACTTTATATGATACAAATTCTTG
1904512 TTATAATTCAATGGGCCAAATAATGACTTTATATGATACAAATTCTTG
1 TTATAATTCAATGGGCCAAATAATGACTTTATATGATACAAATTCTTG
1904560 TTAT
1 TTAT
1904564 GAATGCTAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (48 bp):
TTATAATTCAATGGGCCAAATAATGACTTTATATGATACAAATTCTTG
Found at i:1908977 original size:19 final size:20
Alignment explanation
Indices: 1908928--1908978 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1908918 TAAAATACAA
1908928 TAAATTTAAAAACATATTTT
1 TAAATTTAAAAACATATTTT
**
1908948 TAAATAGAAAAACATA-TTT
1 TAAATTTAAAAACATATTTT
1908967 TAAATTTAAAAA
1 TAAATTTAAAAA
1908979 TGGGTAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAATTTAAAAACATATTTT
Found at i:1913302 original size:10 final size:10
Alignment explanation
Indices: 1913287--1913312 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1913277 CAAGAAGAAT
1913287 GAAAACTAAA
1 GAAAACTAAA
1913297 GAAAACTAAA
1 GAAAACTAAA
1913307 GAAAAC
1 GAAAAC
1913313 AATTAAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.12, G:0.12, T:0.08
Consensus pattern (10 bp):
GAAAACTAAA
Found at i:1914060 original size:15 final size:15
Alignment explanation
Indices: 1914042--1914072 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1914032 AGGGAAAGAA
*
1914042 AGAATGCTTTGGGTG
1 AGAATGCTTTAGGTG
1914057 AGAATGCTTTAGGTG
1 AGAATGCTTTAGGTG
1914072 A
1 A
1914073 ATAGCCCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.35, T:0.32
Consensus pattern (15 bp):
AGAATGCTTTAGGTG
Found at i:1916232 original size:30 final size:30
Alignment explanation
Indices: 1916198--1916271 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
1916188 AATAATTGAA
*
1916198 GTAAAATGAATTATTTGAAAACTATTTTAC
1 GTAAAATGAATTATCTGAAAACTATTTTAC
* * *
1916228 GTAAAATGAGTTATCTGAAAATTATTTTAT
1 GTAAAATGAATTATCTGAAAACTATTTTAC
1916258 GTAAAATGAATTAT
1 GTAAAATGAATTAT
1916272 ATTTTTTTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (30 bp):
GTAAAATGAATTATCTGAAAACTATTTTAC
Found at i:1918277 original size:112 final size:112
Alignment explanation
Indices: 1918072--1918301 Score: 320
Period size: 112 Copynumber: 2.1 Consensus size: 112
1918062 GTTTATGTAT
* *
1918072 TAAAATAGACCAAAACCGATCGTTTAGATGCTAAACAATAAGTTATCATATTTTCTAAAAAGAGA
1 TAAAATAGACCAAAACCGATAGTTTAGATACTAAACAATAAGTTATCATATTTTCTAAAAAGAGA
*
1918137 AGGTCAACTTTTTTAAAAAAATCATTAAGTTTTTAACGATAAAATAC
66 AGGTCAACTTTTTTAAAAAAACCATTAAGTTTTTAACGATAAAATAC
** * * *
1918184 TAAAATAGACCAAAAGTGATAGTTTAGATACTAAAC-GTATAGTTTATCCTATTTTCTAAAATGA
1 TAAAATAGACCAAAACCGATAGTTTAGATACTAAACAATA-AG-TTATCATATTTTCTAAAAAGA
* * * *
1918248 GAAGGTCAA-TTTTTTAAACAAACCTTTAAGTTTTTAACGGTAAAATAT
64 GAAGGTCAACTTTTTTAAAAAAACCATTAAGTTTTTAACGATAAAATAC
1918296 TAAAAT
1 TAAAAT
1918302 GAAATAAAAA
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
111 2 0.02
112 74 0.71
113 28 0.27
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (112 bp):
TAAAATAGACCAAAACCGATAGTTTAGATACTAAACAATAAGTTATCATATTTTCTAAAAAGAGA
AGGTCAACTTTTTTAAAAAAACCATTAAGTTTTTAACGATAAAATAC
Found at i:1919140 original size:23 final size:23
Alignment explanation
Indices: 1919110--1919172 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1919100 ACTTTACAAC
1919110 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1919133 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1919156 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1919173 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1919620 original size:23 final size:23
Alignment explanation
Indices: 1919590--1919652 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1919580 ACTTTACAAC
1919590 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1919613 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1919636 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1919653 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1920100 original size:23 final size:23
Alignment explanation
Indices: 1920070--1920128 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
1920060 TACAACTACC
1920070 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
1920093 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
1920116 TATTACATCATAT
1 TATTACATTATAT
1920129 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:1920581 original size:23 final size:23
Alignment explanation
Indices: 1920551--1920609 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
1920541 TACAACTACC
1920551 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
1920574 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
1920597 TATTACATCATAT
1 TATTACATTATAT
1920610 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:1920862 original size:482 final size:482
Alignment explanation
Indices: 1918704--1922283 Score: 6830
Period size: 482 Copynumber: 7.5 Consensus size: 482
1918694 TTATAATATG
* *
1918704 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1918769 TCAATTTTTTTTAATAGTGTTTCATGTTTTTTCACCTACAATATTAATTTAATAATTTCATTTAC
66 TCAATTTTTTTTAATAGTGTTTCATG-TTTTTCACCTACAATATTAATTTAATAATTTCATTTAC
1918834 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
1918899 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
1918964 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
1919029 TCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAG
325 TCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
1919094 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
1919159 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
1919187 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
*
1919252 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACA
1919317 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1919382 TAACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
1919445 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
1919510 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGA
326 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
1919575 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
1919640 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
1919667 -TGAAAGTGTCCATAC-TTTTATAAAAAGGATCGACAC-TTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
*
1919729 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACA
1919794 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1919859 TAACCAAAGATAATAATAAATATGTAATATATATGTTTA-TGTTTTTAATTTAATAAT-A-ATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
1919921 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
1919986 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
1920051 TAGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
1920116 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
1920143 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* *
1920208 TCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACA
1920272 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1920337 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
1920402 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
1920467 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
1920532 TAGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
1920597 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
1920624 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* *
1920689 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACATACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACA
1920754 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1920819 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAA-TT--TAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
1920881 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
1920946 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGA
326 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
1921011 TAGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
1921076 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
1921103 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* *
1921168 TCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACA
1921232 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1921297 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
1921362 ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
1921427 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
1921492 TAGATAATTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
1921557 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
1921584 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
*
1921649 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACA
1921714 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1921779 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
1921844 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
1921909 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
1921974 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
1922039 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
1922066 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* *
1922131 TCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACA
* *
1922195 CAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1922259 TAACCAAAGATAATAATAAATATGT
196 TAACCAAAGATAATAATAAATATGT
1922284 TTTCCACAGT
Statistics
Matches: 3051, Mismatches: 33, Indels: 29
0.98 0.01 0.01
Matches are distributed among these distances:
476 224 0.07
477 197 0.06
478 392 0.13
479 377 0.12
480 330 0.11
481 669 0.22
482 773 0.25
483 89 0.03
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (482 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
TATTACATCATATTTTTACCTATTATA
Found at i:1920973 original size:960 final size:962
Alignment explanation
Indices: 1918704--1922283 Score: 6876
Period size: 960 Copynumber: 3.7 Consensus size: 962
1918694 TTATAATATG
* *
1918704 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
*
1918769 TCAATTTTTTTTAATAGTGTTTCATGTTTTTTCACCTACAATATTAATTTAATAATTTCATTTAC
66 TCAATTTTTTTTAATAGTGTTTCATG-TTTTTCACCTACAATATTAATTTAATAATTTCATTTGC
1918834 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
1918899 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTT-ATAATAATATA
1918964 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
259 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
1919029 TCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAG
324 TCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAG
*
1919094 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
389 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTAC
1919159 CTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACA
454 CTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACA
* *
1919224 CTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTA
519 CTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTA
*
1919289 CAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAAT
583 CAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAAT
1919354 AATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT-A-ATATATGTT
648 AATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
1919417 TATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
713 TATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
1919482 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAA
778 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAA
*
1919547 AAAAGTATGGACACTTTTATAAAAAAGATAGATACTTTACAACTACCTATTACATTATATAAACG
843 AAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACG
1919612 ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
908 ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
1919667 -TGAAAGTGTCCATAC-TTTTATAAAAAGGATCGACAC-TTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1919729 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
1919794 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1919859 TAACCAAAGATAATAATAAATATGTAATATATATGTTTA-TGTTTTTAA-TT-TAATAATAATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTATAATAAT-ATAT
1919921 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
1919986 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGA
1920051 TAGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACC
390 TAGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACC
1920116 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC
455 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC
1920181 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACA
520 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACA
1920246 ATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAA
585 ATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAA
1920311 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTA
650 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTA
1920376 TTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
715 TTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
1920441 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAA
780 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAA
1920506 AAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGAT
845 AAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGAT
*
1920571 ACATATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
910 ACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
1920624 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
*
1920689 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACATACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
1920754 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1920819 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAA-TT-TAATAATATATA
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTATAATAATATATA
1920882 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
1920947 AAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGAT
326 AAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGAT
1921012 AGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCT
391 AGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCT
1921077 ATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACT
456 ATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACT
1921142 TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAA
521 TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAA
1921207 TATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAAT
586 TATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAAT
1921272 ATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTAT
651 ATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTAT
*
1921337 TGTTTTTAATTTAATAATAATATATATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTA
716 TGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTA
*
1921402 CTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
781 CTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAA
*
1921467 AGTATGGACACTTTTATAAAAAGGATAGATAATTTACAACTACCTATTACATTATATAAACGATA
846 AGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATA
1921532 CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
911 CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
1921584 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1921649 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
1921714 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1921779 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTT-ATAATAATATAT
1921844 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
1921909 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGA
*
1921974 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
390 TAGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACC
1922039 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC
455 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC
1922104 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACA
520 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACA
* *
1922169 ATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATT-ATTTGATATTTTATAAAATAT
585 ATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAA
1922233 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
650 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
1922284 TTTCCACAGT
Statistics
Matches: 2586, Mismatches: 21, Indels: 21
0.98 0.01 0.01
Matches are distributed among these distances:
955 154 0.06
956 294 0.11
957 259 0.10
958 24 0.01
959 163 0.06
960 1191 0.46
961 39 0.02
962 85 0.03
963 377 0.15
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (962 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTATAATAATATATA
TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGAT
AGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCT
ATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACT
TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAA
TATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAAT
ATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTAT
TGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTA
CTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAA
AGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATA
CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:1921060 original size:23 final size:23
Alignment explanation
Indices: 1921030--1921088 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
1921020 TACAACTACC
1921030 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
1921053 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
1921076 TATTACATCATAT
1 TATTACATTATAT
1921089 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:1921537 original size:23 final size:23
Alignment explanation
Indices: 1921507--1921569 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1921497 AATTTACAAC
1921507 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1921530 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1921553 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1921570 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1922019 original size:23 final size:23
Alignment explanation
Indices: 1921989--1922051 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1921979 ACTTTACAAC
1921989 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1922012 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1922035 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1922052 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1925028 original size:40 final size:39
Alignment explanation
Indices: 1924957--1925033 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
1924947 ACATGGAATA
** *
1924957 CACGTAGGTATAGCGCGGCCCTTGGAGCGCGCCTTACGT
1 CACGTAGGTATAGCGCGGCCCAAGGACCGCGCCTTACGT
**
1924996 CACGTAGGATATAGCGCGGGTCAAGGACCGCGCCTTAC
1 CACGTAGG-TATAGCGCGGCCCAAGGACCGCGCCTTAC
1925034 CTTTAATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 8 0.25
40 24 0.75
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.18
Consensus pattern (39 bp):
CACGTAGGTATAGCGCGGCCCAAGGACCGCGCCTTACGT
Found at i:1929327 original size:64 final size:64
Alignment explanation
Indices: 1929213--1929423 Score: 205
Period size: 64 Copynumber: 3.2 Consensus size: 64
1929203 GTGCACTAAG
* * * *
1929213 TGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-AAATAGCCTG-GTGCATCGATGCATGGA
1 TGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAA-AG-CAGAGTGCATCGATGCATGGA
1929276 T
64 T
* * * *
1929277 TGTGCATCGATGCATTAAATGCCTTCGATGTTTTAATTAAAGCAGAGTGCATCGATGCATGGAGA
1 TGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAAGCAGAGTGCATCGATGCATGGA-T
* * * **
1929342 T-TGCATCGGTGCATGGAATGCATTCGATGTTTCAATTTATTCATTGA-TGCATCGATGCATGGT
1 TGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAAGCA--GAGTGCATCGATGCATGG-
1929405 AT
63 AT
*
1929407 TGATGCATCGGTGCATG
1 TG-TGCATCGATGCATG
1929424 CCTTTAAAAA
Statistics
Matches: 123, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
63 2 0.02
64 85 0.69
65 19 0.15
66 3 0.02
67 14 0.11
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (64 bp):
TGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAAGCAGAGTGCATCGATGCATGGAT
Found at i:1929348 original size:19 final size:17
Alignment explanation
Indices: 1929324--1929370 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
1929314 TAAAGCAGAG
1929324 TGCATCGATGCATGGAGA
1 TGCATCGATGCATGGA-A
*
1929342 TTGCATCGGTGCATGGAA
1 -TGCATCGATGCATGGAA
1929360 TGCATTCGATG
1 TGCA-TCGATG
1929371 TTTCAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 15 0.60
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (17 bp):
TGCATCGATGCATGGAA
Found at i:1929408 original size:21 final size:21
Alignment explanation
Indices: 1929384--1929423 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1929374 CAATTTATTC
1929384 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
1929405 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
1929424 CCTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:1932046 original size:24 final size:23
Alignment explanation
Indices: 1931975--1932054 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
1931965 CATGGTCTTG
*
1931975 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGGAA
* *
1931998 TGCATCGGTG--CA-TCATGCGAA
1 TGCATCGATGCACATTCAAG-GAA
*
1932019 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGAA
1932043 TGCATCGATGCA
1 TGCATCGATGCA
1932055 TTGTTAAGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 13 0.28
23 11 0.24
24 16 0.35
25 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGAA
Found at i:1932067 original size:44 final size:43
Alignment explanation
Indices: 1931952--1932068 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 43
1931942 AAAAACCGAC
* *
1931952 GGATGCATCGATGCATGGTCT-TGTGCATCGATGCACATTCAAG
1 GGATGCATCGATGCATTGT-TAAGTGCATCGATGCACATTCAAG
* * **
1931995 GCATGCATCGGTGCATCATGCGAA-TGCATCGATGCACATTCAAAG
1 GGATGCATCGATGCAT--TGTTAAGTGCATCGATGCACATTC-AAG
1932040 GGATGCATCGATGCATTGTTAAGTGCATC
1 GGATGCATCGATGCATTGTTAAGTGCATC
1932069 AGTGCATTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
43 18 0.31
44 23 0.39
45 18 0.31
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (43 bp):
GGATGCATCGATGCATTGTTAAGTGCATCGATGCACATTCAAG
Found at i:1937905 original size:18 final size:17
Alignment explanation
Indices: 1937851--1937899 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1937841 TTGGACTCCT
* *
1937851 AGTGCATCGCTGCACTAA
1 AGTGCATCGATGCA-TGA
1937869 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
1937887 AGTGCATTCGATG
1 AGTGCA-TCGATG
1937900 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:1938000 original size:19 final size:19
Alignment explanation
Indices: 1937976--1938026 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
1937966 TTAATTAAAC
1937976 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
1937995 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
1938014 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
1938027 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:1938011 original size:63 final size:64
Alignment explanation
Indices: 1937851--1938034 Score: 205
Period size: 63 Copynumber: 2.9 Consensus size: 64
1937841 TTGGACTCCT
* * * * *
1937851 AGTGCATCGCTGCACT-AAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA--AAATAGC
1 AGTGCATCGATGCA-TGGAGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAACAG-
1937913 C
64 C
* ** * *
1937914 TGGTGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAACAG-
1 -AGTGCATCGATGCATGGAGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAACAGC
* *
1937978 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTTTCAATT
1 AGTGCATCGATGCATGGAGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATT
1938035 TATTCATTGA
Statistics
Matches: 101, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
63 51 0.50
64 45 0.45
66 5 0.05
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (64 bp):
AGTGCATCGATGCATGGAGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAACAGC
Found at i:1938613 original size:35 final size:34
Alignment explanation
Indices: 1938528--1938614 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
1938518 AAAATAATTT
*
1938528 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
1938562 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
1938600 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
1938615 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:1940984 original size:17 final size:18
Alignment explanation
Indices: 1940943--1940981 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
1940933 ATTATATAAG
1940943 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
1940960 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAT
1940978 TAAA
1 TAAA
1940982 TACAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:1942390 original size:26 final size:26
Alignment explanation
Indices: 1942361--1942415 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
1942351 TTTTATAATA
*
1942361 ATAAATTTTTTATAATTTT-AAAAATT
1 ATAAATTTTATAT-ATTTTAAAAAATT
1942387 ATAAATTTTATATATTTTGAAAAAATT
1 ATAAATTTTATATATTTT-AAAAAATT
1942414 AT
1 AT
1942416 TTTTAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 5 0.19
26 12 0.46
27 9 0.35
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
ATAAATTTTATATATTTTAAAAAATT
Found at i:1942419 original size:24 final size:21
Alignment explanation
Indices: 1942367--1942420 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 21
1942357 AATAATAAAT
1942367 TTTTTATAATTTTAAAAATTA
1 TTTTTATAATTTTAAAAATTA
1942388 TAAATTTTATATATTTTGAAAAAATTA
1 T---TTTTATA-ATTTT--AAAAATTA
1942415 TTTTTA
1 TTTTTA
1942421 AAAAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
21 1 0.04
24 12 0.44
25 5 0.19
27 9 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTTATAATTTTAAAAATTA
Found at i:1942427 original size:16 final size:18
Alignment explanation
Indices: 1942406--1942442 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
1942396 ATATATTTTG
1942406 AAAAAATT-ATT-TTTAA
1 AAAAAATTAATTGTTTAA
1942422 AAAAAATTAATTGTTTAA
1 AAAAAATTAATTGTTTAA
1942440 AAA
1 AAA
1942443 TATTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
AAAAAATTAATTGTTTAA
Found at i:1943109 original size:347 final size:338
Alignment explanation
Indices: 1942438--1943176 Score: 1170
Period size: 347 Copynumber: 2.2 Consensus size: 338
1942428 TTAATTGTTT
1942438 AAAAATATTAAAATAAACTTTTAATTACAATTAAGGGATCAAATGAATTATTATTCATTAATTTT
1 AAAAATATTAAAATAAACTTTTAATTACAATTAAGGGATCAAATGAATTATTATTCATTAATTTT
* * ** *
1942503 AATTTTTTACAACAGTTAATAATGTTTATTCATTTTTAATAAAATTATTTTGATTTTTGTATTAA
66 AATTTTTAACAACAGTTAATAATGCTTATTCATTTTTAATAAAATTATTTAAATTTTTGCATTAA
* * *
1942568 AATTACACAATACGTATAATCTAGTTTATGAAAACTTTGAGGGTAAGTATTTTAAAATATGAATA
131 AATTACACAATACATATAATCTAGTATATAAAAACTTTGAGGGTAAGTATTTTAAAATATGAATA
*
1942633 ATTTTATAAAAGTTTTATAACTAGTATTTCTTTTTATAAAATGATCATTATGATGACAATAATAA
196 ATTTTATAAAAGTTTTATAACTAGTATTTCTTTTTACAAAATGA--ATTA-GATG-----AATAA
*
1942698 ATATTTTATAATTTTAAAAATTATAAATTTCATATATTCTTGAAAACAATTATTACCTTTTAAAA
253 ATATTTTATAATTTAAAAAATTATAAATTTCATATATTCTTGAAAACAATTATTACCTTTTAAAA
1942763 TTAATTGTTTAAAAATATAAA
318 TTAATTGTTTAAAAATATAAA
* * *
1942784 AAAAATATTAAAATAAACTTTTAATTACAATTGAGGGATCATATGAATTATTATTTATTAATTTT
1 AAAAATATTAAAATAAACTTTTAATTACAATTAAGGGATCAAATGAATTATTATTCATTAA-TTT
1942849 TAATTTTTAACAACAGTTAATAATGCTTATTCATTTTTAATAAAATTATTTAAATTTTTGCATTA
65 TAATTTTTAACAACAGTTAATAATGCTTATTCATTTTTAATAAAATTATTTAAATTTTTGCATTA
* *
1942914 AAATTATACAATACATATAATCTAGTATATAAAAACTTTGAGGGTAAGTATTTTAAAATATGACT
130 AAATTACACAATACATATAATCTAGTATATAAAAACTTTGAGGGTAAGTATTTTAAAATATGAAT
1942979 AATTTTATAAAAGTTTTATAACTAGTATTTC-TTTTACAAAATG-A-TA-ATG-ATAAATATTTT
195 AATTTTATAAAAGTTTTATAACTAGTATTTCTTTTTACAAAATGAATTAGATGAATAAATATTTT
* *
1943039 ATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAA-AATTATTGCCTTTTAAAATTAATTG
260 ATAATTTAAAAAATTATAAATTTCATATATTCTTGAAAACAATTATTACCTTTTAAAATTAATTG
1943103 TTTAAAAATAT--A
325 TTTAAAAATATAAA
* *
1943115 AAAAATATTAAAATAAACTTTTAATTACAATTGAGGGATCAAATGAATTATTATTCAATAAT
1 AAAAATATTAAAATAAACTTTTAATTACAATTAAGGGATCAAATGAATTATTATTCATTAAT
1943177 ATTTTCAAAA
Statistics
Matches: 372, Mismatches: 20, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
330 1 0.00
331 59 0.16
333 35 0.09
334 48 0.13
340 3 0.01
342 2 0.01
343 1 0.00
346 69 0.19
347 154 0.41
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (338 bp):
AAAAATATTAAAATAAACTTTTAATTACAATTAAGGGATCAAATGAATTATTATTCATTAATTTT
AATTTTTAACAACAGTTAATAATGCTTATTCATTTTTAATAAAATTATTTAAATTTTTGCATTAA
AATTACACAATACATATAATCTAGTATATAAAAACTTTGAGGGTAAGTATTTTAAAATATGAATA
ATTTTATAAAAGTTTTATAACTAGTATTTCTTTTTACAAAATGAATTAGATGAATAAATATTTTA
TAATTTAAAAAATTATAAATTTCATATATTCTTGAAAACAATTATTACCTTTTAAAATTAATTGT
TTAAAAATATAAA
Found at i:1946569 original size:31 final size:31
Alignment explanation
Indices: 1946534--1946670 Score: 211
Period size: 31 Copynumber: 4.4 Consensus size: 31
1946524 ATTCACGTCC
* * **
1946534 AAGTGACAAAAACCTAATAAAATGATAACGT
1 AAGTGACCAAAACTTAATAAAACAATAACGT
**
1946565 AAGTGACCAAAACTTAATAAAATGATAACGT
1 AAGTGACCAAAACTTAATAAAACAATAACGT
1946596 AAGTGACCAAAACTTAATAAAACAATAACGT
1 AAGTGACCAAAACTTAATAAAACAATAACGT
*
1946627 AAGTGACCAAAACTTAATAAAACAATAATGT
1 AAGTGACCAAAACTTAATAAAACAATAACGT
1946658 AAGTGACCAAAAC
1 AAGTGACCAAAAC
1946671 ATATGCTTTT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 101 1.00
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.20
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAACAATAACGT
Found at i:1948963 original size:17 final size:18
Alignment explanation
Indices: 1948926--1948966 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1948916 ATATTATGTA
*
1948926 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
1948944 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
1948961 TTTACT
1 TTTACT
1948967 AATATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:1951061 original size:18 final size:18
Alignment explanation
Indices: 1951038--1951076 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1951028 TCAGGACGAC
1951038 GACGACGACGACGATGAT
1 GACGACGACGACGATGAT
** *
1951056 GACGACGGTGATGATGAT
1 GACGACGACGACGATGAT
1951074 GAC
1 GAC
1951077 AGCGAGGAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.18, G:0.36, T:0.15
Consensus pattern (18 bp):
GACGACGACGACGATGAT
Found at i:1951261 original size:26 final size:24
Alignment explanation
Indices: 1951190--1951261 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
1951180 TTATATTTGT
1951190 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
1951215 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
1951237 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
1951262 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:1958412 original size:20 final size:20
Alignment explanation
Indices: 1958376--1958413 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1958366 ATCTTATTCT
**
1958376 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
1958396 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
1958414 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:1959624 original size:60 final size:60
Alignment explanation
Indices: 1959506--1959630 Score: 139
Period size: 60 Copynumber: 2.1 Consensus size: 60
1959496 ATAACTATAG
* * * *
1959506 TTTGAGAATGAAATTGAAATATTTACAAATTTAAAAATCAATTTAAATTGAAGGTCATAA
1 TTTGAAAATAAAATTGAAATATTTACAAATTTAAAAATCAATTTAAAATGAAGATCATAA
* * *
1959566 TTTGAAAATAAAATTGAAATGTTTA-AAAGTTTGAAAA-CTAATTTAAAAT-AATGATCATAG
1 TTTGAAAATAAAATTGAAATATTTACAAA-TTTAAAAATC-AATTTAAAATGAA-GATCATAA
1959626 TTTGA
1 TTTGA
1959631 GGATGAATGA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
59 6 0.11
60 49 0.89
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (60 bp):
TTTGAAAATAAAATTGAAATATTTACAAATTTAAAAATCAATTTAAAATGAAGATCATAA
Found at i:1963260 original size:21 final size:22
Alignment explanation
Indices: 1963234--1963275 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1963224 ATTAAATATT
1963234 AAATATTAAAA-ATAAAAATAA
1 AAATATTAAAATATAAAAATAA
*
1963255 AAATATTAAAATTTAAAAATA
1 AAATATTAAAATATAAAAATA
1963276 CTAAAAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATATTAAAATATAAAAATAA
Found at i:1966366 original size:12 final size:12
Alignment explanation
Indices: 1966349--1966376 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1966339 AATTATTTTC
1966349 AACCATATAATA
1 AACCATATAATA
1966361 AACCATATAATA
1 AACCATATAATA
1966373 AACC
1 AACC
1966377 CCATCAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
AACCATATAATA
Found at i:1967791 original size:10 final size:10
Alignment explanation
Indices: 1967776--1967817 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
1967766 TAATCCCATT
1967776 TAGTTGCATA
1 TAGTTGCATA
1967786 TAGTTGCATA
1 TAGTTGCATA
1967796 TAGTT-CAT-
1 TAGTTGCATA
*
1967804 TCATTTGCATA
1 T-AGTTGCATA
1967815 TAG
1 TAG
1967818 CTCATTCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
8 1 0.04
9 6 0.22
10 19 0.70
11 1 0.04
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.43
Consensus pattern (10 bp):
TAGTTGCATA
Found at i:1967813 original size:19 final size:19
Alignment explanation
Indices: 1967789--1967834 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
1967779 TTGCATATAG
*
1967789 TTGCATATAGTTCATTCAT
1 TTGCATATAGCTCATTCAT
1967808 TTGCATATAGCTCATTCAT
1 TTGCATATAGCTCATTCAT
*
1967827 TTACATAT
1 TTGCATAT
1967835 GATGGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (19 bp):
TTGCATATAGCTCATTCAT
Found at i:1985186 original size:81 final size:81
Alignment explanation
Indices: 1985085--1985725 Score: 998
Period size: 81 Copynumber: 7.9 Consensus size: 81
1985075 AACTGTGTTA
* * *
1985085 GAGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCATTTAGACGA
1 GAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGA
1985150 AAGGTTAAATACCTTT
66 AAGGTTAAATACCTTT
* * *
1985166 GAGTAAAAGATTAATGGCCTAGTTATGCATTTGACAGAAATGTGTCAATTATTCCAGTTAGATGA
1 GAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGA
1985231 AAGGTTAAATACCTTT
66 AAGGTTAAATACCTTT
* * * * *
1985247 GAGTAAAATATTAATGGTCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTAAGATGA
1 GAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGA
*
1985312 AAGGTTAAATACTTTT
66 AAGGTTAAATACCTTT
* * *
1985328 GAGAAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGA
1 GAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGA
1985393 AAGGTTAAATACCTTT
66 AAGGTTAAATACCTTT
* * *
1985409 GAGCAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCATTTAGATGA
1 GAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGA
1985474 AAGGTTAAATACCTTT
66 AAGGTTAAATACCTTT
* * *
1985490 GAGTAAAATATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATTCCAGTTTGATGA
1 GAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGA
*
1985555 AAGGTTAAGTACCTTT
66 AAGGTTAAATACCTTT
*
1985571 GAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAAATGA
1 GAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGA
*
1985636 AAGGTTAAATATCTTT
66 AAGGTTAAATACCTTT
* * * * *
1985652 GAGTAAAAGATTAATGGTCTAGCTGTGCATTTGATATAAAAT-T-TTAATTATGCTAGTTAGATG
1 GAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACA-GAAATGTGTCAATTATGCCAGTTAGATG
1985715 AAAGGTTAAAT
65 AAAGGTTAAAT
1985726 GACTTTAGGT
Statistics
Matches: 517, Mismatches: 42, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
80 28 0.05
81 485 0.94
82 4 0.01
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (81 bp):
GAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGA
AAGGTTAAATACCTTT
Found at i:1987707 original size:26 final size:24
Alignment explanation
Indices: 1987670--1987720 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
1987660 AAATAGAAAT
*
1987670 AAAAAAATGTATACAAATTTTATTA
1 AAAAAAAAGTATACAAATTTT-TTA
**
1987695 AAAAAAAGAGTATTGAAATTTTTTA
1 AAAAAAA-AGTATACAAATTTTTTA
1987720 A
1 A
1987721 TTTATTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (24 bp):
AAAAAAAAGTATACAAATTTTTTA
Found at i:1988591 original size:31 final size:31
Alignment explanation
Indices: 1988542--1988601 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
1988532 GTGCCTAATA
* *
1988542 TTTTTTCTGTTATACTTTTACGAGTCTAACG
1 TTTTTTCTGTTACACTTTTAAGAGTCTAACG
*
1988573 TTTTCTTC-GTTACACTTTTAAGTGTCTAA
1 TTTT-TTCTGTTACACTTTTAAGAGTCTAA
1988602 TGTTATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.52
Consensus pattern (31 bp):
TTTTTTCTGTTACACTTTTAAGAGTCTAACG
Found at i:1989911 original size:7 final size:7
Alignment explanation
Indices: 1989899--1989926 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1989889 AATTAGTCAT
1989899 GTTTCAA
1 GTTTCAA
1989906 GTTTCAA
1 GTTTCAA
1989913 GTTTCAA
1 GTTTCAA
1989920 GTTTCAA
1 GTTTCAA
1989927 TGATAATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (7 bp):
GTTTCAA
Found at i:1990264 original size:2 final size:2
Alignment explanation
Indices: 1990257--1990282 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1990247 ACCCTAACGC
1990257 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
1990283 TCCCCCCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1992254 original size:24 final size:24
Alignment explanation
Indices: 1992226--1992301 Score: 152
Period size: 24 Copynumber: 3.2 Consensus size: 24
1992216 CACTATGTAT
1992226 CCTCCCGGGGGAGTCTATGCACAC
1 CCTCCCGGGGGAGTCTATGCACAC
1992250 CCTCCCGGGGGAGTCTATGCACAC
1 CCTCCCGGGGGAGTCTATGCACAC
1992274 CCTCCCGGGGGAGTCTATGCACAC
1 CCTCCCGGGGGAGTCTATGCACAC
1992298 CCTC
1 CCTC
1992302 ATATGGCCCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.16, C:0.39, G:0.28, T:0.17
Consensus pattern (24 bp):
CCTCCCGGGGGAGTCTATGCACAC
Found at i:1992327 original size:2 final size:2
Alignment explanation
Indices: 1992320--1992638 Score: 182
Period size: 2 Copynumber: 162.5 Consensus size: 2
1992310 CAGGTAATAT
* * * * *
1992320 TC TC TC TC TC TC CC TC TC TC TC CC TC TC TC CC CC TC TC TC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* *
1992362 TC TC CC TC TC TC CC TC TC TC TC TC TC TC TC -C TC -C TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * *
1992402 TC TC TC TC T- TT TC CC TC TC TC CC TC TC TC CC CC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * *
1992443 TC CC TC TC CC TC TC TC TC TC CC TC TC -C CC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * * * * * *
1992484 -C CC TC CC CC TC TC TC CC TC TC CC TC TC CC TC CC CC TC CC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * * * *
1992525 CC CC TC TC TC -C TC TC TC CC TC TC CC TC TC CC TC CC CC TC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * * * * * * * *
1992566 CC TC CC CC TC CC CC TC CC CC TC TC CC TC TC CC CC CC TC TC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1992608 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1992639 TTTTGCCATT
Statistics
Matches: 250, Mismatches: 61, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
1 6 0.02
2 244 0.98
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (2 bp):
TC
Found at i:1992336 original size:8 final size:8
Alignment explanation
Indices: 1992320--1992637 Score: 234
Period size: 8 Copynumber: 41.8 Consensus size: 8
1992310 CAGGTAATAT
*
1992320 TCTCTCTC
1 TCTCTCCC
1992328 TCTC-CCTC
1 TCTCTCC-C
1992336 TCTCTCCC
1 TCTCTCCC
1992344 TCTCTCCC
1 TCTCTCCC
*
1992352 CCTCTCTCC
1 TCTCTC-CC
1992361 -CTCTCCC
1 TCTCTCCC
1992368 TCTCTCCC
1 TCTCTCCC
*
1992376 TCTCTCTC
1 TCTCTCCC
1992384 TCTCTCTCC
1 TCTCTC-CC
*
1992393 TC-CTCTC
1 TCTCTCCC
*
1992400 TCTCTCTC
1 TCTCTCCC
*
1992408 TCTTTTCCC
1 TC-TCTCCC
1992417 TCTCTCCC
1 TCTCTCCC
1992425 TCTCTCCC
1 TCTCTCCC
*
1992433 -C-CTCTC
1 TCTCTCCC
1992439 TCTCTCCC
1 TCTCTCCC
1992447 TCTC-CCTC
1 TCTCTCC-C
1992455 TCTCTCTCC
1 TCTCTC-CC
1992464 -CTCTCCC
1 TCTCTCCC
*
1992471 -CTCTCTC
1 TCTCTCCC
1992478 TCTCTCCC
1 TCTCTCCC
*
1992486 -CTCCCCC
1 TCTCTCCC
1992493 TCTCTCCC
1 TCTCTCCC
1992501 TCTC-CCTC
1 TCTCTCC-C
*
1992509 TCCCTCCC
1 TCTCTCCC
1992517 -C-CTCCC
1 TCTCTCCC
*
1992523 -C-CCCCC
1 TCTCTCCC
1992529 TCTCT-CC
1 TCTCTCCC
1992536 TCTCTCCC
1 TCTCTCCC
1992544 TCTC-CCTC
1 TCTCTCC-C
*
1992552 TCCCTCCC
1 TCTCTCCC
1992560 -C-CTCCC
1 TCTCTCCC
1992566 -C-CTCCC
1 TCTCTCCC
1992572 -C-CTCCC
1 TCTCTCCC
1992578 -C-CTCCC
1 TCTCTCCC
*
1992584 CCTCTCCC
1 TCTCTCCC
*
1992592 TCTCCCCC
1 TCTCTCCC
*
1992600 CCTCTCCC
1 TCTCTCCC
*
1992608 TCTCTCTC
1 TCTCTCCC
*
1992616 TCTCTCTC
1 TCTCTCCC
*
1992624 TCTCTCTC
1 TCTCTCCC
1992632 TCTCTC
1 TCTCTC
1992638 TTTTTGCCAT
Statistics
Matches: 263, Mismatches: 24, Indels: 46
0.79 0.07 0.14
Matches are distributed among these distances:
6 37 0.14
7 39 0.15
8 167 0.63
9 19 0.07
10 1 0.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (8 bp):
TCTCTCCC
Found at i:1992718 original size:2 final size:2
Alignment explanation
Indices: 1992713--1992747 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1992703 TTTGTATAGG
*
1992713 TC TC TC TC TC TC TC TC TC TC TC TC TC AC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1992748 TTTTGCCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:1992771 original size:109 final size:109
Alignment explanation
Indices: 1992607--1992821 Score: 421
Period size: 109 Copynumber: 2.0 Consensus size: 109
1992597 CCCCCTCTCC
*
1992607 CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTTTGCCATTTGTATTCCTTTTGATTCACAGTT
1 CTCTCTCTCTCTCTCTCTCTCTCACTCTCTCTTTTTGCCATTTGTATTCCTTTTGATTCACAGTT
1992672 ATAAAATAAATGCCCTTCCTCTTGGCAATTTTTTGTATAGGTCT
66 ATAAAATAAATGCCCTTCCTCTTGGCAATTTTTTGTATAGGTCT
1992716 CTCTCTCTCTCTCTCTCTCTCTCACTCTCTCTTTTTGCCATTTGTATTCCTTTTGATTCACAGTT
1 CTCTCTCTCTCTCTCTCTCTCTCACTCTCTCTTTTTGCCATTTGTATTCCTTTTGATTCACAGTT
1992781 ATAAAATAAATGCCCTTCCTCTTGGCAATTTTTTGTATAGG
66 ATAAAATAAATGCCCTTCCTCTTGGCAATTTTTTGTATAGG
1992822 GTCCAAGCGT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 105 1.00
ACGTcount: A:0.16, C:0.27, G:0.09, T:0.47
Consensus pattern (109 bp):
CTCTCTCTCTCTCTCTCTCTCTCACTCTCTCTTTTTGCCATTTGTATTCCTTTTGATTCACAGTT
ATAAAATAAATGCCCTTCCTCTTGGCAATTTTTTGTATAGGTCT
Found at i:1994207 original size:20 final size:21
Alignment explanation
Indices: 1994169--1994207 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1994159 TGTGTTCCAT
1994169 AGGCCGAGTGCGAAGAGCTAC
1 AGGCCGAGTGCGAAGAGCTAC
1994190 AGGCCAGAGTG-G-AGAGCT
1 AGGCC-GAGTGCGAAGAGCT
1994208 TGGCGAACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.28, C:0.21, G:0.41, T:0.10
Consensus pattern (21 bp):
AGGCCGAGTGCGAAGAGCTAC
Found at i:2005537 original size:45 final size:47
Alignment explanation
Indices: 2005485--2005573 Score: 146
Period size: 45 Copynumber: 1.9 Consensus size: 47
2005475 TCGAATAAAT
*
2005485 GCATGCGAACTAGATATCATGTGGTTAGG-TTTATTTTT-TGAACAA
1 GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAACAA
*
2005530 GCATGCGAATTAGATATCATGCGGTTAGGATTTATTTTTGTGAA
1 GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAA
2005574 TAACAAAGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 27 0.68
46 9 0.22
47 4 0.10
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (47 bp):
GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAACAA
Found at i:2015188 original size:12 final size:12
Alignment explanation
Indices: 2015161--2015194 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2015151 TCGCTTGAAG
2015161 AAGAAATAAAAAA
1 AAGAAA-AAAAAA
*
2015174 AAGAAAAAGAAA
1 AAGAAAAAAAAA
2015186 AAGAAAAAA
1 AAGAAAAAA
2015195 GGAGGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:2015233 original size:18 final size:17
Alignment explanation
Indices: 2015200--2015274 Score: 89
Period size: 18 Copynumber: 4.3 Consensus size: 17
2015190 AAAAAGGAGG
*
2015200 AAAATGAAAGAAAATGA
1 AAAATGAAAAAAAATGA
2015217 AAAATGAGAAAAAAATGA
1 AAAATGA-AAAAAAATGA
*
2015235 AAAATGGTGAAAAAAA-GA
1 AAAAT-G-AAAAAAAATGA
*
2015253 AAAATGAAGAAAAATGA
1 AAAATGAAAAAAAATGA
2015270 AAAAT
1 AAAAT
2015275 ATAAAACGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
16 6 0.12
17 15 0.30
18 21 0.42
19 8 0.16
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (17 bp):
AAAATGAAAAAAAATGA
Found at i:2015262 original size:10 final size:10
Alignment explanation
Indices: 2015215--2015270 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
2015205 GAAAGAAAAT
2015215 GAAAAATG-A
1 GAAAAATGAA
2015224 GAAAAA--AA
1 GAAAAATGAA
**
2015232 TGAAAAATGGT
1 -GAAAAATGAA
2015243 GAAAAA--AA
1 GAAAAATGAA
2015251 GAAAAATGAA
1 GAAAAATGAA
2015261 GAAAAATGAA
1 GAAAAATGAA
2015271 AAATATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
8 7 0.19
9 12 0.32
10 18 0.49
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.11
Consensus pattern (10 bp):
GAAAAATGAA
Found at i:2016762 original size:55 final size:55
Alignment explanation
Indices: 2016692--2017159 Score: 517
Period size: 55 Copynumber: 8.6 Consensus size: 55
2016682 GTTGAAGATT
* * * **
2016692 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTTTGAAGATTGTTC
* **
2016747 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACTCGTTTCATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTTTGAAGATTGTTC
*
2016802 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTATTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTTTGAAGATTGTTC
* * *
2016857 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGCTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTTTGAAGATTGTTC
* * *
2016912 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGGA-ACGTTTGTTAAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGC-GGACACGTTTTTTGAAGATTGTTC
* * * *
2016963 GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGAC-CTGTTTATTGAAGA-T-TTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACAC-GTTTTTTGAAGATTGTTC
* * * *
2017016 TGAGTTCTATACTCTCTGAAGAAATATAGAGCGGACCCATTTTTTTGGAAGATTGTTC
1 -GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACAC-GTTTTTT-GAAGATTGTTC
* * ** * *
2017074 AAG-TCTTATACTCTCTGAATGAATAGAGAGAAGACACATTTTATGAAGATTGTTC
1 GAGTTC-TATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTTTGAAGATTGTTC
*
2017129 GAG-TCTTATACT-TCCTGAAGGAATAGGGAGC
1 GAGTTC-TATACTCT-CTGAAGGAATAGAGAGC
2017160 AGGCTCGTCA
Statistics
Matches: 356, Mismatches: 45, Indels: 24
0.84 0.11 0.06
Matches are distributed among these distances:
50 4 0.01
51 39 0.11
52 3 0.01
54 31 0.09
55 233 0.65
56 15 0.04
57 28 0.08
58 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (55 bp):
GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTTTGAAGATTGTTC
Found at i:2022303 original size:21 final size:21
Alignment explanation
Indices: 2022260--2022305 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2022250 TTTCATTTGA
*
2022260 AATATTCAAAAGTAGATAATT
1 AATATTCAAAAGTAAATAATT
*
2022281 AATATTC-AAAGTTAAATAGTT
1 AATATTCAAAAG-TAAATAATT
2022302 AATA
1 AATA
2022306 AATACATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (21 bp):
AATATTCAAAAGTAAATAATT
Found at i:2023173 original size:21 final size:21
Alignment explanation
Indices: 2023149--2023189 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2023139 ACATGACATC
2023149 CATAACAAAAAACTTTAAATG
1 CATAACAAAAAACTTTAAATG
**
2023170 CATAACAACCAACTTTAAAT
1 CATAACAAAAAACTTTAAAT
2023190 CCATTATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.24
Consensus pattern (21 bp):
CATAACAAAAAACTTTAAATG
Found at i:2029724 original size:41 final size:41
Alignment explanation
Indices: 2029676--2029758 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
2029666 CAAAAACACA
*
2029676 ACTAAAGTACAAGTCTATA-ATGGCGTTTGTATAAAAATGCC
1 ACTAAAGTACAACTCTATAGA-GGCGTTTGTATAAAAATGCC
* * *
2029717 ACTAAAGTACGACTCTATAGAGGTGTTTGTATACAAATGCC
1 ACTAAAGTACAACTCTATAGAGGCGTTTGTATAAAAATGCC
2029758 A
1 A
2029759 TGAAAGTCCG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (41 bp):
ACTAAAGTACAACTCTATAGAGGCGTTTGTATAAAAATGCC
Found at i:2030283 original size:83 final size:81
Alignment explanation
Indices: 2030057--2030290 Score: 228
Period size: 81 Copynumber: 2.9 Consensus size: 81
2030047 CAGCTATATA
* * *
2030057 GCGGCGTTTGTTG-AAAAATGCCACTATATACGTATTATATT-CGGCTATTGTATAAAAAAGCCG
1 GCGGCGTTTGTTGAAAAAATGCCACTATATA-TTAATATATTGCGGCT-TTGTATAAAAACGCCG
*
2030120 CTTAAGTACTACTATGGT
64 CTAAAGTACTACTATGGT
* * * *
2030138 GCAGTGTTTATTGAAAAAA--CCACTATATATGAA-ACCTATTGCGGCATTTGTA-AAACAACGC
1 GCGGCGTTTGTTGAAAAAATGCCACTATATATTAATA--TATTGCGGC-TTTGTATAAA-AACGC
* *
2030199 CGCTAAAGTACTACTCTGTT
62 CGCTAAAGTACTACTATGGT
* * * *
2030219 GCGGCGTTTGTTGAAAAAATGCCACTATAGATTAATATTATTGTGGCGTTTGTATAAGATCGCCG
1 GCGGCGTTTGTTGAAAAAATGCCACTATATATTAATA-TATTGCGGC-TTTGTATAAAAACGCCG
2030284 CTAAAGT
64 CTAAAGT
2030291 TATCATTTTG
Statistics
Matches: 123, Mismatches: 20, Indels: 18
0.76 0.12 0.11
Matches are distributed among these distances:
78 1 0.01
79 1 0.01
80 17 0.14
81 56 0.46
82 6 0.05
83 39 0.32
84 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (81 bp):
GCGGCGTTTGTTGAAAAAATGCCACTATATATTAATATATTGCGGCTTTGTATAAAAACGCCGCT
AAAGTACTACTATGGT
Found at i:2030706 original size:21 final size:20
Alignment explanation
Indices: 2030664--2030708 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
2030654 TTTTGTATTG
*
2030664 AATAAATTAATAATTATTTT
1 AATAAATTAATAATTATCTT
2030684 AATAAATTTAATAATT-TGCTT
1 AATAAA-TTAATAATTAT-CTT
2030705 AATA
1 AATA
2030709 TAATATATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTAATAATTATCTT
Found at i:2033429 original size:30 final size:31
Alignment explanation
Indices: 2033377--2033440 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
2033367 ATCTTTGACT
*
2033377 TTTGGAAGATGATAAGGGTTAGGTGTCTTGG
1 TTTGGAAGATGATAAGGGTTAGGTGTCCTGG
2033408 TTTGGAAGATGATAA-GGTTAGGTGTCCTGG
1 TTTGGAAGATGATAAGGGTTAGGTGTCCTGG
2033438 TTT
1 TTT
2033441 AATGGTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.22, C:0.05, G:0.36, T:0.38
Consensus pattern (31 bp):
TTTGGAAGATGATAAGGGTTAGGTGTCCTGG
Found at i:2034198 original size:31 final size:31
Alignment explanation
Indices: 2034132--2034201 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
2034122 ACAAGCCTTA
* *
2034132 GAAAAATTAGGGGACCATTCTATAATTTTTT
1 GAAAAGTTAGGGGACCATTCTATAATTTTTG
2034163 GAAAAGTTAGGGGACCAATT-TAATAA-TTTTG
1 GAAAAGTTAGGGGACC-ATTCT-ATAATTTTTG
2034194 GAAAAGTT
1 GAAAAGTT
2034202 GTGAATGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 28 0.80
32 7 0.20
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (31 bp):
GAAAAGTTAGGGGACCATTCTATAATTTTTG
Found at i:2040828 original size:2 final size:2
Alignment explanation
Indices: 2040821--2040845 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2040811 TGCCTTTTAT
2040821 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2040846 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2046159 original size:5 final size:5
Alignment explanation
Indices: 2046149--2046177 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2046139 CAACAAAAAA
2046149 GAAAG GAAAG GAAAG GAAAG GAAAG GAAA
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAA
2046178 AGGTTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:2047920 original size:20 final size:20
Alignment explanation
Indices: 2047891--2047928 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2047881 TTTGGTTCAC
2047891 GGAATATAAGATTACCAGTG
1 GGAATATAAGATTACCAGTG
*
2047911 GGAATGTAAGATTACCAG
1 GGAATATAAGATTACCAG
2047929 GGAATATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (20 bp):
GGAATATAAGATTACCAGTG
Found at i:2047933 original size:18 final size:19
Alignment explanation
Indices: 2047891--2047935 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
2047881 TTTGGTTCAC
2047891 GGAATATAAGATTACCAGTG
1 GGAATATAAGATTACCAG-G
*
2047911 GGAATGTAAGATTACCA-G
1 GGAATATAAGATTACCAGG
2047929 GGAATAT
1 GGAATAT
2047936 GATTACTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.40, C:0.09, G:0.27, T:0.24
Consensus pattern (19 bp):
GGAATATAAGATTACCAGG
Found at i:2049806 original size:2 final size:2
Alignment explanation
Indices: 2049794--2049866 Score: 73
Period size: 2 Copynumber: 38.5 Consensus size: 2
2049784 TTGTCCCTAC
*
2049794 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2049835 TA CA -A TT TA TA T- TT TA TT TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2049867 GTTATTTACA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
1 4 0.07
2 55 0.93
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2049879 original size:20 final size:20
Alignment explanation
Indices: 2049801--2049879 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
2049791 TACTATATAA
* *
2049801 ATATATATATATATATATATAT
1 ATATAT-TATTTACATATAT-T
2049823 ATATATATATTATACA-AT-TT
1 ATATAT-TATT-TACATATATT
* *
2049843 ATATTTTATTTATATATATT
1 ATATATTATTTACATATATT
*
2049863 ATATGTTATTTACATAT
1 ATATATTATTTACATAT
2049880 CTTTCTTTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.06
19 6 0.12
20 23 0.48
21 1 0.02
22 12 0.25
23 3 0.06
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (20 bp):
ATATATTATTTACATATATT
Found at i:2051986 original size:98 final size:99
Alignment explanation
Indices: 2051731--2051986 Score: 374
Period size: 100 Copynumber: 2.6 Consensus size: 99
2051721 ATATTACATA
*
2051731 TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
1 TATACAATAAA-CTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
* *
2051796 ACTCAGCTAAGCCTGATAAAGGTGATTATAATATC
65 ACTCAACTAAGCCTAATAAAGGTGATTATAATATC
2051831 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGA-TTTATGGATAA
1 TATACAATAAA-CTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCC-GACTTTATGGATAA
* * *
2051895 TATTCAACT-AGCTTAATAAAGGTGATTATAATATC
64 GACTCAACTAAGCCTAATAAAGGTGATTATAATATC
* * *
2051930 TATACAATGATA-TTGAGTTGTCCCTCTAGAGTAATTGGTTAAACACCCCGACTTTAT
1 TATACAAT-AAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTAT
2051987 AGATCCAACT
Statistics
Matches: 144, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
97 2 0.01
98 40 0.28
99 32 0.22
100 68 0.47
101 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (99 bp):
TATACAATAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAGA
CTCAACTAAGCCTAATAAAGGTGATTATAATATC
Found at i:2053217 original size:120 final size:120
Alignment explanation
Indices: 2052907--2053330 Score: 544
Period size: 120 Copynumber: 3.5 Consensus size: 120
2052897 CTCAAAAAAC
* * *
2052907 ACAATTCTTGGATTTCAACTTCACGACGAATGATATCCAATTTAAGGCTCAACTTCACAACGAAG
1 ACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAG
* * *
2052972 GAGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGTCCA-TCAGCAGCACTT
66 GGGCCATCCACGATTTCAACTTCACAACGAAGGATATCGTGTCCACT-AGCA--ACAT
** * * * *
2053029 ATCTTTAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCGAGGCTCAACTTCACAACAA
1 A-CAATA-CTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGA
* * * *
2053094 AGGGGTCATCCACGATTTTAACTTCACAACGAAAGATATCGTGTTCACTAGCAACAT
64 AGGGGCCATCCACGATTTCAACTTCACAACGAAGGATATCGTGTCCACTAGCAACAT
* *
2053151 ACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCATAATGAAG
1 ACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAG
* * *
2053216 GGGCCATCCACGATTTCAACTTCACAACGAAGGATATCGTGCCCACAAGCAGCAAT
66 GGGCCATCCACGATTTCAACTTCACAACGAAGGATATCGTGTCCACTAGCAAC-AT
* ** * * *
2053272 GCAACCCTTGGATTTCAACTTCAAGACGAAGGTTATCCAATTCAAAGCTCAACTTCACA
1 ACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACA
2053331 GCGGAGGAGC
Statistics
Matches: 260, Mismatches: 38, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
120 99 0.38
121 57 0.22
122 5 0.02
123 2 0.01
124 96 0.37
125 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (120 bp):
ACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAG
GGGCCATCCACGATTTCAACTTCACAACGAAGGATATCGTGTCCACTAGCAACAT
Found at i:2053619 original size:260 final size:260
Alignment explanation
Indices: 2053158--2053775 Score: 993
Period size: 260 Copynumber: 2.4 Consensus size: 260
2053148 CATACAATAC
* * *
2053158 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCATAATGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGGGCCAT
*
2053223 CCACGATTTCAACTTCACAACGAAGGATATCGTGCCCACAAGCAGCAATGCAACCCTTGGATTTC
66 CCACGATTTCAACTTCACAACGAAGGATATCGTGCCCAAAAGCAGCAATGCAACCCTTGGATTTC
* *
2053288 AACTTCAAGACGAAGGTTATCCAATTCAAAGCTCAACTTCACAGCGGAGGAGCTTTACAGTTTCA
131 AACTTCAAGACGAAGGATATCCAATTCAAAGCTCAACTTCACAGAGGAGGAGCTTTACAGTTTCA
* * *
2053353 TTCAGAGCCAATTTCAACTTCACGGTGAAGGATATTAGACTCGAAATAATACAACTTACACAAGA
196 TTCAGAGCCAATTTCAACTTCACGGCGAAGGATATTAGACTCGAAACAACACAACTTACACAAGA
*
2053418 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAATGCTCAACTTCACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGGGCCAT
*
2053483 CCACGATTTCAACTTCACGACGAAGGATATCGTGCCCAAAAGCAGCAATGCAACCCTTGGATTTC
66 CCACGATTTCAACTTCACAACGAAGGATATCGTGCCCAAAAGCAGCAATGCAACCCTTGGATTTC
* * *
2053548 AACTTCATGACGAATGATATCCAATTCAAAGCTCAACTTCACAGAGGAGGAGCTTTCCAGTTTCA
131 AACTTCAAGACGAAGGATATCCAATTCAAAGCTCAACTTCACAGAGGAGGAGCTTTACAGTTTCA
* * ** *
2053613 TTCAGAGTCAATTTCAACTTCACGGCGAAGGATATTGGACTCGAAACAACGTATCTTACACAAGA
196 TTCAGAGCCAATTTCAACTTCACGGCGAAGGATATTAGACTCGAAACAACACAACTTACACAAGA
* * * * *
2053678 TTGGATTTCAACTTCACGACGAAAGATATCTAATTCAAAGCTCAACTTCACAACGAATGAGCTAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGGGCCAT
* * *
2053743 CTACAATTTCAACTTCCCAACGAAGGATATCGT
66 CCACGATTTCAACTTCACAACGAAGGATATCGT
2053776 ATCCTAAAGA
Statistics
Matches: 330, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
260 330 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (260 bp):
TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGGGCCAT
CCACGATTTCAACTTCACAACGAAGGATATCGTGCCCAAAAGCAGCAATGCAACCCTTGGATTTC
AACTTCAAGACGAAGGATATCCAATTCAAAGCTCAACTTCACAGAGGAGGAGCTTTACAGTTTCA
TTCAGAGCCAATTTCAACTTCACGGCGAAGGATATTAGACTCGAAACAACACAACTTACACAAGA
Found at i:2054199 original size:11 final size:11
Alignment explanation
Indices: 2054185--2054211 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2054175 ATATTATACA
2054185 ATTTATATGTT
1 ATTTATATGTT
2054196 ATTTATATGTT
1 ATTTATATGTT
2054207 ATTTA
1 ATTTA
2054212 CATATCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (11 bp):
ATTTATATGTT
Found at i:2055270 original size:12 final size:11
Alignment explanation
Indices: 2055253--2055348 Score: 59
Period size: 12 Copynumber: 8.3 Consensus size: 11
2055243 AATTTAATCC
*
2055253 TTTTATTACTCT
1 TTTTATTA-TAT
2055265 TTTTATTATTAT
1 TTTTATTA-TAT
* *
2055277 TATTATTATTT
1 TTTTATTATAT
2055288 TTTTATTATTAT
1 TTTTATTA-TAT
*
2055300 TATTATTAT-T
1 TTTTATTATAT
* *
2055310 TGTTCATTTTAT
1 T-TTTATTATAT
*
2055322 TTTTATTCTAT
1 TTTTATTATAT
*
2055333 TTCCTATTATTAT
1 TT-TTATTA-TAT
2055346 TTT
1 TTT
2055349 GTTTTAATAT
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
10 2 0.03
11 25 0.39
12 32 0.50
13 5 0.08
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.71
Consensus pattern (11 bp):
TTTTATTATAT
Found at i:2055275 original size:3 final size:3
Alignment explanation
Indices: 2055267--2055309 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
2055257 ATTACTCTTT
*
2055267 TTA TTA TTA TTA TTA TTA TT- TTT TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2055310 TGTTCATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:2055294 original size:23 final size:23
Alignment explanation
Indices: 2055255--2055346 Score: 96
Period size: 23 Copynumber: 4.0 Consensus size: 23
2055245 TTTAATCCTT
*
2055255 TTATTACTCTTTTTATTATTATTA
1 TTATTA-TTTTTTTATTATTATTA
2055279 TTATTATTTTTTTATTATTATTA
1 TTATTATTTTTTTATTATTATTA
* * *
2055302 TTATTATTTGTTCATT-TTATTT
1 TTATTATTTTTTTATTATTATTA
* **
2055324 TTATTCTATTTCCTATTATTATT
1 TTATTAT-TTTTTTATTATTATT
2055347 TTGTTTTAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
22 11 0.19
23 35 0.61
24 11 0.19
ACGTcount: A:0.23, C:0.07, G:0.01, T:0.70
Consensus pattern (23 bp):
TTATTATTTTTTTATTATTATTA
Found at i:2055427 original size:20 final size:20
Alignment explanation
Indices: 2055402--2055463 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
2055392 ATTATTTCTA
2055402 TTTTATTTTAATCCTT-TTAT
1 TTTTATTTTAAT-CTTATTAT
* *
2055422 TTTTATTTTTATTTTATTAT
1 TTTTATTTTAATCTTATTAT
2055442 TTTTATTTTTATATCTTATTAT
1 TTTTA-TTTTA-ATCTTATTAT
2055464 ATATATTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 2 0.06
20 20 0.57
21 4 0.11
22 9 0.26
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTATTTTAATCTTATTAT
Found at i:2055445 original size:26 final size:26
Alignment explanation
Indices: 2055393--2055453 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
2055383 TATATATATA
* *
2055393 TTATTTCTA-TTTTATTTTAATCCTT
1 TTATTTTTATTTTTATTTTAATACTT
* *
2055418 TTATTTTTATTTTTATTTTATTATTT
1 TTATTTTTATTTTTATTTTAATACTT
2055444 TTATTTTTAT
1 TTATTTTTAT
2055454 ATCTTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 8 0.26
26 23 0.74
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (26 bp):
TTATTTTTATTTTTATTTTAATACTT
Found at i:2055470 original size:22 final size:20
Alignment explanation
Indices: 2055425--2055470 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
2055415 CTTTTATTTT
* *
2055425 TATTTTTATTTTATTATTTT
1 TATTTTTATTTTATTATATA
2055445 TATTTTTATATCTTATTATATA
1 TATTTTTAT-T-TTATTATATA
2055467 TATT
1 TATT
2055471 CTATTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 1 0.05
22 12 0.55
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTTTTATTTTATTATATA
Found at i:2055487 original size:27 final size:26
Alignment explanation
Indices: 2055421--2055488 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
2055411 AATCCTTTTA
* *
2055421 TTTTTATTTTTATTTTATTATTTTTAT
1 TTTTTA-TTTTATTATATTATTTCTAT
*
2055448 TTTTATATCTTATTATA-TATATTCTAT
1 TTTT-TATTTTATTATATTAT-TTCTAT
2055475 TTATTTATTTTATT
1 TT-TTTATTTTATT
2055489 TCGTTTTCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 3 0.09
27 27 0.79
28 4 0.12
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTTATTTTATTATATTATTTCTAT
Found at i:2055516 original size:2 final size:2
Alignment explanation
Indices: 2055511--2055609 Score: 93
Period size: 2 Copynumber: 51.5 Consensus size: 2
2055501 TGTTTGTGTG
*
2055511 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TGC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
* * * *
2055553 TT TT TA -A T- TA T- TT TA T- TA AA TA T- TA TA CTA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
2055591 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
2055610 TACTAACTTT
Statistics
Matches: 84, Mismatches: 5, Indels: 16
0.80 0.05 0.15
Matches are distributed among these distances:
1 6 0.07
2 75 0.89
3 3 0.04
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (2 bp):
TA
Found at i:2055863 original size:12 final size:13
Alignment explanation
Indices: 2055840--2055868 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2055830 TTTTTTCACC
2055840 TTTATCTTATTTA
1 TTTATCTTATTTA
2055853 TTTAT-TTATTTA
1 TTTATCTTATTTA
2055865 TTTA
1 TTTA
2055869 ATTTTTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATCTTATTTA
Found at i:2058232 original size:2 final size:2
Alignment explanation
Indices: 2058225--2058253 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2058215 CCACGTCGGT
2058225 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2058254 TACTAACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2071677 original size:34 final size:32
Alignment explanation
Indices: 2071638--2071703 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
2071628 AGAAGATAAG
2071638 TAAAAACTTAAAGTAAAAATAAAGATGAAAAAAA
1 TAAAAACTTAAA-TAAAAATAAA-ATGAAAAAAA
**
2071672 TAAAAACTTTTATAAAAATAAAATGAAAAAAA
1 TAAAAACTTAAATAAAAATAAAATGAAAAAAA
2071704 AATCTAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.33
33 10 0.33
34 10 0.33
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (32 bp):
TAAAAACTTAAATAAAAATAAAATGAAAAAAA
Found at i:2072331 original size:35 final size:35
Alignment explanation
Indices: 2072289--2072370 Score: 164
Period size: 35 Copynumber: 2.3 Consensus size: 35
2072279 TTATTCCTTT
2072289 AACCAAACACAATAATCTTACATTCCTGCTAAACC
1 AACCAAACACAATAATCTTACATTCCTGCTAAACC
2072324 AACCAAACACAATAATCTTACATTCCTGCTAAACC
1 AACCAAACACAATAATCTTACATTCCTGCTAAACC
2072359 AACCAAACACAA
1 AACCAAACACAA
2072371 AATACAACAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (35 bp):
AACCAAACACAATAATCTTACATTCCTGCTAAACC
Found at i:2074380 original size:3 final size:3
Alignment explanation
Indices: 2074372--2074396 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2074362 GTTTTTGTAA
2074372 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
2074397 TTTAATCTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2075113 original size:17 final size:16
Alignment explanation
Indices: 2075072--2075119 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
2075062 TAGTGAAATA
*
2075072 CAGAGAAAAGAAAACC
1 CAGAGAAAAGAAAAAC
*
2075088 CAGAAAAAAAGAAAAAC
1 CAG-AGAAAAGAAAAAC
*
2075105 GAGAGAAAAGAAAAA
1 CAGAGAAAAGAAAAA
2075120 ATAACTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.71, C:0.10, G:0.19, T:0.00
Consensus pattern (16 bp):
CAGAGAAAAGAAAAAC
Found at i:2076146 original size:29 final size:29
Alignment explanation
Indices: 2076080--2076159 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 29
2076070 ATATTTGTGC
* *
2076080 CATTTTAGTCCTTTAAGTTTTGGTTTTTT
1 CATTTTGGTCCTTTAAGTTTTGGTTTTCT
2076109 CTATTTTGGTCCTTTAAGTTGTT-GTTTTCT
1 C-ATTTTGGTCCTTTAAGTT-TTGGTTTTCT
2076139 CATTTTGGTCCTTGTAA-TTTT
1 CATTTTGGTCCTT-TAAGTTTT
2076160 AAATATTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
28 2 0.04
29 15 0.33
30 27 0.59
31 2 0.04
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.60
Consensus pattern (29 bp):
CATTTTGGTCCTTTAAGTTTTGGTTTTCT
Found at i:2078045 original size:18 final size:18
Alignment explanation
Indices: 2078022--2078059 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2078012 CTCGTCTCGA
2078022 GTCGTGGTTGTGGTCGTG
1 GTCGTGGTTGTGGTCGTG
*
2078040 GTCGTGGTTGTGTTCGTG
1 GTCGTGGTTGTGGTCGTG
2078058 GT
1 GT
2078060 AATACGTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.47, T:0.42
Consensus pattern (18 bp):
GTCGTGGTTGTGGTCGTG
Found at i:2078178 original size:21 final size:21
Alignment explanation
Indices: 2078152--2078334 Score: 182
Period size: 21 Copynumber: 8.8 Consensus size: 21
2078142 ATTTTGGACT
* *
2078152 ATCGCAATGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
2078173 ATCGCAACGAACTTGGACT--
1 ATCGCAACGAACTTGGAATAA
*
2078192 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
2078213 ATCGCAACGAACTTGGACT--
1 ATCGCAACGAACTTGGAATAA
*
2078232 ATCGCAACAAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
2078253 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
2078274 ATCGCAACGCGAACTT-CAACT--
1 ATCGCAA--CGAACTTGGAA-TAA
* *
2078295 ATTGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
2078316 ATCGCAATGCGAACTTGGA
1 ATCGCAA--CGAACTTGGA
2078335 CTATCGCAAT
Statistics
Matches: 132, Mismatches: 18, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
19 41 0.31
20 2 0.02
21 71 0.54
22 2 0.02
23 16 0.12
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:2078204 original size:40 final size:40
Alignment explanation
Indices: 2078145--2078269 Score: 214
Period size: 40 Copynumber: 3.1 Consensus size: 40
2078135 CGTTGCGATT
*
2078145 TTGGACTATCGCAATGAATTTGGAATAAATCGCAACGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAAC
2078185 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAAC
* * *
2078225 TTGGACTATCGCAACAAACTTGGAATAAATCGCAACGAAT
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAAC
2078265 TTGGA
1 TTGGA
2078270 ATAAATCGCA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (40 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAAC
Done.