Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_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: 5677467
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 24
Found at i:1368229 original size:15 final size:15
Alignment explanation
Indices: 1368209--1368246 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
1368199 GTCAACAGTA
1368209 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
1368224 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
1368239 GTCAACGG
1 GTCAACGG
1368247 GTCGGGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (15 bp):
GTCAACGGTCAACGG
Found at i:1368270 original size:18 final size:18
Alignment explanation
Indices: 1368247--1368281 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1368237 GGGTCAACGG
1368247 GTCGGGTCAACGAGTCGA
1 GTCGGGTCAACGAGTCGA
*
1368265 GTCGGGTCAACGGGTCG
1 GTCGGGTCAACGAGTCG
1368282 GGTAACGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GTCGGGTCAACGAGTCGA
Found at i:1368290 original size:12 final size:13
Alignment explanation
Indices: 1368236--1368297 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
1368226 CAACGGTCAA
1368236 CGGGTCAACGGGT
1 CGGGTCAACGGGT
1368249 CGGGTCAACGAGTCGAGT
1 CGGGTCAAC--G--G-GT
1368267 CGGGTCAACGGGT
1 CGGGTCAACGGGT
1368280 CGGGT-AACGGGT
1 CGGGTCAACGGGT
1368292 CGGGTC
1 CGGGTC
1368298 GGGTAAACGG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
12 12 0.28
13 16 0.37
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 11 0.26
ACGTcount: A:0.16, C:0.23, G:0.45, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:1368297 original size:17 final size:18
Alignment explanation
Indices: 1368275--1368319 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
1368265 GTCGGGTCAA
1368275 CGGGTCGGGT-AACGGGT
1 CGGGTCGGGTAAACGGGT
1368292 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
1368310 CGGGTCGGGT
1 CGGGTCGGGT
1368320 TGTGACCGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 10 0.37
18 17 0.63
ACGTcount: A:0.11, C:0.18, G:0.53, T:0.18
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:1368314 original size:13 final size:12
Alignment explanation
Indices: 1368265--1368296 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
1368255 AACGAGTCGA
1368265 GTCGGGTCAACGG
1 GTCGGGT-AACGG
1368278 GTCGGGTAACGG
1 GTCGGGTAACGG
1368290 GTCGGGT
1 GTCGGGT
1368297 CGGGTAAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.12, C:0.19, G:0.50, T:0.19
Consensus pattern (12 bp):
GTCGGGTAACGG
Found at i:1372096 original size:18 final size:18
Alignment explanation
Indices: 1372073--1372107 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1372063 TTCCATCCGG
*
1372073 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
1372091 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
1372108 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:1373219 original size:7 final size:7
Alignment explanation
Indices: 1373207--1373244 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
1373197 GTCAACAGTA
1373207 GTCAACG
1 GTCAACG
1373214 GTCAACGG
1 GTCAAC-G
1373222 GTCAACG
1 GTCAACG
1373229 GTCAACGG
1 GTCAAC-G
1373237 GTCAACG
1 GTCAACG
1373244 G
1 G
1373245 GTCGGGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 15 0.52
8 14 0.48
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (7 bp):
GTCAACG
Found at i:1373226 original size:8 final size:8
Alignment explanation
Indices: 1373207--1373278 Score: 73
Period size: 8 Copynumber: 9.4 Consensus size: 8
1373197 GTCAACAGTA
1373207 GTCAAC-G
1 GTCAACGG
1373214 GTCAACGG
1 GTCAACGG
1373222 GTCAAC-G
1 GTCAACGG
1373229 GTCAACGG
1 GTCAACGG
1373237 GTCAACGG
1 GTCAACGG
1373245 GT---CGG
1 GTCAACGG
*
1373250 GTCAACGA
1 GTCAACGG
*
1373258 GTCGAGTCGG
1 GTC-A-ACGG
1373268 GTCAACGG
1 GTCAACGG
1373276 GTC
1 GTC
1373279 GGGTAAACGG
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
5 5 0.09
7 13 0.24
8 29 0.54
9 2 0.04
10 5 0.09
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (8 bp):
GTCAACGG
Found at i:1373227 original size:15 final size:15
Alignment explanation
Indices: 1373207--1373244 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
1373197 GTCAACAGTA
1373207 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
1373222 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
1373237 GTCAACGG
1 GTCAACGG
1373245 GTCGGGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (15 bp):
GTCAACGGTCAACGG
Found at i:1373252 original size:13 final size:13
Alignment explanation
Indices: 1373234--1373296 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
1373224 CAACGGTCAA
1373234 CGGGTCAACGGGT
1 CGGGTCAACGGGT
1373247 CGGGTCAACGAGTCGAGT
1 CGGGTCAAC--G--G-GT
1373265 CGGGTCAACGGGT
1 CGGGTCAACGGGT
*
1373278 CGGGTAAACGGGT
1 CGGGTCAACGGGT
1373291 CGGGTC
1 CGGGTC
1373297 GGGTAAACGG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
13 28 0.65
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 11 0.26
ACGTcount: A:0.17, C:0.22, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:1373268 original size:18 final size:18
Alignment explanation
Indices: 1373245--1373279 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1373235 GGGTCAACGG
1373245 GTCGGGTCAACGAGTCGA
1 GTCGGGTCAACGAGTCGA
*
1373263 GTCGGGTCAACGGGTCG
1 GTCGGGTCAACGAGTCG
1373280 GGTAAACGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GTCGGGTCAACGAGTCGA
Found at i:1373272 original size:31 final size:30
Alignment explanation
Indices: 1373219--1373314 Score: 124
Period size: 31 Copynumber: 3.2 Consensus size: 30
1373209 CAACGGTCAA
*
1373219 CGGGTCAACGGTC-A-ACGGGTCAACGGGT
1 CGGGTCAACGGTCGAGTCGGGTCAACGGGT
1373247 CGGGTCAACGAGTCGAGTCGGGTCAACGGGT
1 CGGGTCAACG-GTCGAGTCGGGTCAACGGGT
* * *
1373278 CGGGTAAACGGGTCGGGTCGGGTAAACGGGT
1 CGGGTCAAC-GGTCGAGTCGGGTCAACGGGT
1373309 CGGGTC
1 CGGGTC
1373315 GGGTTGTGAC
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.17
29 3 0.05
30 1 0.02
31 44 0.75
32 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.44, T:0.16
Consensus pattern (30 bp):
CGGGTCAACGGTCGAGTCGGGTCAACGGGT
Found at i:1373294 original size:18 final size:18
Alignment explanation
Indices: 1373273--1373318 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
1373263 GTCGGGTCAA
1373273 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
1373291 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
1373309 CGGGTCGGGT
1 CGGGTCGGGT
1373319 TGTGACCGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.13, C:0.17, G:0.52, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:1381584 original size:25 final size:25
Alignment explanation
Indices: 1381553--1381609 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
1381543 TGAGGTCAGC
1381553 AATGCATTGATATTTTCACATTGTG
1 AATGCATTGATATTTTCACATTGTG
1381578 AATGCATTGATATTTTCACATTGTG
1 AATGCATTGATATTTTCACATTGTG
*
1381603 CATGCAT
1 AATGCAT
1381610 CTTGTACCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (25 bp):
AATGCATTGATATTTTCACATTGTG
Found at i:1390265 original size:10 final size:10
Alignment explanation
Indices: 1390250--1390276 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1390240 AGCGGCTATG
1390250 GAGGAAGTGA
1 GAGGAAGTGA
1390260 GAGGAAGTGA
1 GAGGAAGTGA
1390270 GAGGAAG
1 GAGGAAG
1390277 CTCTGCTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.52, T:0.07
Consensus pattern (10 bp):
GAGGAAGTGA
Found at i:1405385 original size:23 final size:22
Alignment explanation
Indices: 1405350--1405395 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1405340 GAGCTAGTCT
*
1405350 TAAAAAATAAAAAAATTAATTGA
1 TAAAAAA-CAAAAAATTAATTGA
* *
1405373 TAAAAAACGAAAATTTAATTGA
1 TAAAAAACAAAAAATTAATTGA
1405395 T
1 T
1405396 TTTTTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (22 bp):
TAAAAAACAAAAAATTAATTGA
Found at i:1406183 original size:23 final size:22
Alignment explanation
Indices: 1406136--1406195 Score: 79
Period size: 23 Copynumber: 2.8 Consensus size: 22
1406126 AAAATAACAG
1406136 AAAAG-TAGAGATAAA-TACCA
1 AAAAGATAGAGATAAACTACCA
*
1406156 CAAAGATAGAGATAAACGTACCA
1 AAAAGATAGAGATAAAC-TACCA
*
1406179 AAAAGACAGAGATAAAC
1 AAAAGATAGAGATAAAC
1406196 ATGTCATCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 10 0.29
23 20 0.59
ACGTcount: A:0.58, C:0.13, G:0.17, T:0.12
Consensus pattern (22 bp):
AAAAGATAGAGATAAACTACCA
Found at i:1406505 original size:2 final size:2
Alignment explanation
Indices: 1406498--1406524 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1406488 CTAAATTATG
1406498 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 T
1406525 GAAAAACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1418522 original size:21 final size:23
Alignment explanation
Indices: 1418483--1418524 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
1418473 GCTATTAGTT
1418483 TTTAAACTCTTTAAATTTTATAG
1 TTTAAACTCTTTAAATTTTATAG
*
1418506 TTTAAA-T-TTTAACTTTTAT
1 TTTAAACTCTTTAAATTTTAT
1418525 CATGTGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 1 0.06
23 6 0.33
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTAAACTCTTTAAATTTTATAG
Found at i:1424504 original size:21 final size:21
Alignment explanation
Indices: 1424462--1424504 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1424452 TTTCTGGGCT
* *
1424462 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
1424483 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
1424504 A
1 A
1424505 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:1425243 original size:23 final size:23
Alignment explanation
Indices: 1425199--1425243 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1425189 ATTATTATAT
*
1425199 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
1425222 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1425244 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1431316 original size:21 final size:21
Alignment explanation
Indices: 1431274--1431316 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1431264 TTTCTGGGCT
* *
1431274 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
1431295 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
1431316 A
1 A
1431317 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:1431368 original size:20 final size:20
Alignment explanation
Indices: 1431343--1431380 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1431333 GAATGCTAGA
*
1431343 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
1431363 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
1431381 TGTAAAAAAA
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:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:1436271 original size:4 final size:4
Alignment explanation
Indices: 1436257--1438611 Score: 3704
Period size: 4 Copynumber: 601.5 Consensus size: 4
1436247 TTATTTATAT
* * * *
1436257 ATAC ATTC ATAC ATAC ATAC ATTC ATAC ATAC ATAC ATAT ATTC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
1436305 ATAC ATAC A-ATC ATTC ATAC ATAC ATTC ATTC ATTC ATAC ATAC ATAC
1 ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1436353 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1436401 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1436449 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATTC ATAC ATAC ATAC ATTC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
1436497 ATAC ATAC ATAC ATAT ATTC ATAC ATAC ATAT A-ATC ATTC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC
* * *
1436545 ATTC ATTC ATTC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1436593 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1436641 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1436689 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1436737 ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1436784 ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1436830 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
1436878 ATAC ATAC AT-- ATAC ATCAT ATAT ATAC AT-C ATAC ATAC CTAC ATAC
1 ATAC ATAC ATAC ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1436924 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1436970 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1437018 -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1437065 ATAC ATAC ATAC AT-C ATAC ATAC ATAC AT-C ATAC ATAC ATCC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1437111 ATAC A-AC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC -TAC AGAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1437156 AT-- ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1437201 ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC --AC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1437245 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1437292 ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1437339 ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC --AC ATAC AT-C
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1437383 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC A-AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1437429 ATAC ATAC ATAC ATAC ATAC -CAC ATAC ATAC ATAC CTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1437476 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATATC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC
* * * * *
1437524 ATGC ATGC ATGC ATGC AT-C ATGC ATAC ATAC ATAC AT-- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1437569 ATAC ATA- ATAC -TAC ATAC TATAC ATAC ATAC ATAC CTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1437616 ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* ** *
1437663 AT-- ATAC ATAC ATAC -TGC ATAC ATAC ATGT AT-C ATAT ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1437707 ATAC ATAC ATGCAC ATAC ATAC ATAC ATGCAC ATAC ATAC ATAC CTAC
1 ATAC ATAC AT--AC ATAC ATAC ATAC AT--AC ATAC ATAC ATAC ATAC
* * * *
1437755 ATAC ATAC ATAC CTAC CTAC ATGC ATAC ATAC ATAC ATAC CTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1437803 ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1437851 -TAC ATAC ATAC ATAC ATAC ATAC ACAC ATAC ATAC TATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC
1437899 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1437946 ATAC ATAC AGAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TACC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C
1437994 ATAC ATAC -TAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1438040 ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC AGAC --AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1438085 ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1438132 ATAC ATACC ATAC ATAC ATAC ATAC ATAC ATA- ATAC ATAC ATAC ATAC
1 ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1438180 ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC CTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1438227 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1438274 ATAC ATAC ATAC ATAC ATACC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1438323 ATAC -TAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC A-AC AT-C ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1438367 ATAC AT-C ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1438410 ATAC ATAC ATAC ATCC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1438458 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1438506 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1438554 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1438602 ATGC ATAC AT
1 ATAC ATAC AT
1438612 GCATTTTTAA
Statistics
Matches: 2202, Mismatches: 72, Indels: 154
0.91 0.03 0.06
Matches are distributed among these distances:
2 20 0.01
3 124 0.06
4 2026 0.92
5 24 0.01
6 8 0.00
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:1438669 original size:37 final size:37
Alignment explanation
Indices: 1438619--1438689 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
1438609 CATGCATTTT
1438619 TAAAAAACCTTGAAGGTTTAAATTATTTTTAAAACTG
1 TAAAAAACCTTGAAGGTTTAAATTATTTTTAAAACTG
1438656 TAAAAAACCTTGAAGGTTTAAATTATTTTTAAAA
1 TAAAAAACCTTGAAGGTTTAAATTATTTTTAAAA
1438690 AAAGTTTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (37 bp):
TAAAAAACCTTGAAGGTTTAAATTATTTTTAAAACTG
Found at i:1446257 original size:61 final size:61
Alignment explanation
Indices: 1446160--1446276 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
1446150 GGGTTTGTTT
* * *
1446160 ACTAATATATCACATCATTAAATTAACGAGAGTTAACATACTAAAGAACAAAATAAAATAG
1 ACTAATATATCACATCATTAAACTAACGAGAGTTAACAGACTAAAAAACAAAATAAAATAG
* * * *
1446221 ACTAATGTGTCACATCATTAAACTAACGAGATTTAACAGACTAAAAAATAAAATAA
1 ACTAATATATCACATCATTAAACTAACGAGAGTTAACAGACTAAAAAACAAAATAA
1446277 GACAAATCGA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.25
Consensus pattern (61 bp):
ACTAATATATCACATCATTAAACTAACGAGAGTTAACAGACTAAAAAACAAAATAAAATAG
Found at i:1456868 original size:23 final size:24
Alignment explanation
Indices: 1456842--1456895 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
1456832 ATATAATATA
1456842 ATTTTAAATAACCTTTTTTATT-T
1 ATTTTAAATAACCTTTTTTATTAT
* * * *
1456865 ATTTCAACTTATCTTTTTTATTAAT
1 ATTTTAAATAACCTTTTTTATT-AT
1456890 ATTTTA
1 ATTTTA
1456896 TTATTAATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 18 0.75
25 6 0.25
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (24 bp):
ATTTTAAATAACCTTTTTTATTAT
Found at i:1478915 original size:42 final size:42
Alignment explanation
Indices: 1478868--1478948 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
1478858 TCGTAGGAGA
*
1478868 AAAAGAAGAAAAATGGCAATGAGAGAGCGGTTGTCGGTTTAG
1 AAAAGAAGAAAAATGGCAATGAGAGAGCAGTTGTCGGTTTAG
1478910 AAAAGAAGAAAAATGGCAATGAGAGAGCAGTTGTCGGTT
1 AAAAGAAGAAAAATGGCAATGAGAGAGCAGTTGTCGGTT
1478949 ATTAGATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.42, C:0.07, G:0.32, T:0.19
Consensus pattern (42 bp):
AAAAGAAGAAAAATGGCAATGAGAGAGCAGTTGTCGGTTTAG
Found at i:1482419 original size:14 final size:13
Alignment explanation
Indices: 1482387--1482450 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 13
1482377 CCTGCCCCGA
1482387 TTATATATATA-T
1 TTATATATATATT
*
1482399 ATATATATATAATAT
1 TTATATATAT-AT-T
1482414 TT-TATAT-T-TT
1 TTATATATATATT
1482424 TTATAT-TA-ATT
1 TTATATATATATT
1482435 TTATATATAATATT
1 TTATATAT-ATATT
1482449 TT
1 TT
1482451 CGGGTTCGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
10 4 0.10
11 12 0.29
12 10 0.24
13 3 0.07
14 10 0.24
15 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATATATATATT
Found at i:1482503 original size:19 final size:19
Alignment explanation
Indices: 1482481--1482518 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1482471 GGTATAATAT
1482481 TTCAGGTCGGGTTCGGGGA
1 TTCAGGTCGGGTTCGGGGA
**
1482500 TTCATTTCGGGTTCGGGGA
1 TTCAGGTCGGGTTCGGGGA
1482519 CGGGGCGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.16, G:0.42, T:0.32
Consensus pattern (19 bp):
TTCAGGTCGGGTTCGGGGA
Found at i:1482515 original size:25 final size:25
Alignment explanation
Indices: 1482455--1482516 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
1482445 TATTTTCGGG
* *
1482455 TTCGGGTTCGGGTTTGGGTATAATAT
1 TTCGGGTTCGGGTTCGGGGAT-ATAT
*
1482481 TTCAGG-TCGGGTTCGGGGAT-TCAT
1 TTCGGGTTCGGGTTCGGGGATAT-AT
1482505 TTCGGGTTCGGG
1 TTCGGGTTCGGG
1482517 GACGGGGCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 1 0.03
24 7 0.23
25 17 0.57
26 5 0.17
ACGTcount: A:0.11, C:0.13, G:0.39, T:0.37
Consensus pattern (25 bp):
TTCGGGTTCGGGTTCGGGGATATAT
Found at i:1484250 original size:23 final size:23
Alignment explanation
Indices: 1484233--1484297 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
1484223 AATAACATAC
1484233 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
**
1484256 TAGGTAGCATTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
*
1484279 TAGGTAGTGCTTATATAAT
1 TAGGTAGCGCTTATATAAT
1484298 AAATATCGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:1484440 original size:21 final size:21
Alignment explanation
Indices: 1484402--1484441 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1484392 GTCCACAGTG
* *
1484402 AAAAAAGTATGGACACTTTTA
1 AAAAAAGGATAGACACTTTTA
*
1484423 AAAAAAGGATAGATACTTT
1 AAAAAAGGATAGACACTTT
1484442 ACAATATAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (21 bp):
AAAAAAGGATAGACACTTTTA
Found at i:1484481 original size:23 final size:22
Alignment explanation
Indices: 1484455--1484514 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 22
1484445 ATATAACCAC
1484455 TACCTATTACATTATATAAACGA
1 TACCTATTACA-TATATAAACGA
* *
1484478 TACCTATTAC--ATATAAGCGC
1 TACCTATTACATATATAAACGA
1484498 TACCTATTACATCATAT
1 TACCTATTACAT-ATAT
1484515 TTTACATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 18 0.56
23 14 0.44
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (22 bp):
TACCTATTACATATATAAACGA
Found at i:1484903 original size:23 final size:23
Alignment explanation
Indices: 1484876--1484938 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1484866 ATACAACCAC
1484876 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1484899 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1484922 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1484939 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:1485290 original size:424 final size:426
Alignment explanation
Indices: 1484293--1485555 Score: 2179
Period size: 421 Copynumber: 3.0 Consensus size: 426
1484283 TAGTGCTTAT
*
1484293 ATAATAAATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
1 ATAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
* * *
1484358 AAACTCACTCAAAGGATAACCTTAAATTAATGTTGTCCACAGTGAAAAAAGTATGGACACTTTTA
65 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATG-AAAAAGTATGGACACTTTTA
*
1484423 AAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTAC
129 TAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTAC
* *
1484488 ---ATATAAGCGCTACCTATTACATCATA-TTTTACATATTATATTGAAAGTGTTCATACTTTTT
194 ATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTT
1484549 ATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTT
259 AT-AAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTG-TT
*
1484614 CATGTTTTCCACATAC-ATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTT
322 CATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTT
1484678 GATATTTTATAAAATAATATTTAGAATTTTTAA-TT--TA
387 GATATTTTATAAAATAATATTTAGAATTTTTAATTTAATA
1484715 ATAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAA
1 ATAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAA
1484780 AACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTAT
66 AACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATG-AAAAAGTATGGACACTTTTAT
*
1484845 AAAAAGGATAGATACTTTACAATACAACCACTACCTATTACATTATATAAACGATACCTATTACA
130 AAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACA
1484910 TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTA
195 TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTA
* *
1484975 TAAAAGGATCGATGCTTCTTTTAAAGTTATGTAATTCATGTTTCAATTTTTTTTAATAGTGTTCA
260 TAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTCA
1485040 TGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTG-TTTGA
324 TGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGA
1485104 TATTTTATAAAATAATATTTAGAATTTTTAATTTAATA
389 TATTTTATAAAATAATATTTAGAATTTTTAATTTAATA
1485142 ATAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAA
1 ATAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAA
1485207 AACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATG-AAAAGTATGGACACTTTTATA
66 AACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAGTATGGACACTTTTATA
* *
1485271 AAATGGATATATA-TTTACAATATAACCACTACCTATTACATTATATAAAC-ATACCTATTACAT
131 AAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACAT
1485334 TATATAAGCGCTACCTATTACATCATATTTTT-CCTATTATATTGAAAGTGTCCATACTTTTTAT
196 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTAT
* *
1485398 AAAAAGATCGATACTTCTTTTAAA-TTATGTAATTTATG-TTCAATTTTTTTAACAGTGTTCCA-
261 AAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTT-CAT
1485460 GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAATTATTTGATTGTTTTGAT
325 GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
*
1485524 A-TTT-TAAAATAATATTTAGAA-TTTAAATTTAA
390 ATTTTATAAAATAATATTTAGAATTTTTAATTTAA
1485556 CAACATTAAC
Statistics
Matches: 811, Mismatches: 19, Indels: 28
0.95 0.02 0.03
Matches are distributed among these distances:
416 10 0.01
417 17 0.02
418 19 0.02
419 63 0.08
420 7 0.01
421 183 0.23
422 72 0.09
423 45 0.06
424 158 0.19
425 127 0.16
427 110 0.14
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (426 bp):
ATAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAA
AACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAGTATGGACACTTTTATA
AAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACAT
TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTAT
AAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTCATG
TTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATA
TTTTATAAAATAATATTTAGAATTTTTAATTTAATA
Found at i:1485352 original size:23 final size:22
Alignment explanation
Indices: 1485290--1485361 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
1485280 TATATTTACA
*
1485290 ATATAACCACTACCTATTACATT
1 ATATAAAC-CTACCTATTACATT
*
1485313 ATATAAACATACCTATTACATT
1 ATATAAACCTACCTATTACATT
* *
1485335 ATATAAGCGCTACCTATTACATC
1 ATATAAAC-CTACCTATTACATT
1485358 ATAT
1 ATAT
1485362 TTTTCCTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
22 20 0.47
23 23 0.53
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.35
Consensus pattern (22 bp):
ATATAAACCTACCTATTACATT
Found at i:1485820 original size:39 final size:39
Alignment explanation
Indices: 1485766--1485852 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
1485756 TCAAGTTGTA
*
1485766 GATTTTGATTTCCTTTTGCTTGACATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
* *
1485805 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
1485844 GATTTTGAT
1 GATTTTGAT
1485853 GAGCATCGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.18, C:0.14, G:0.20, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
Found at i:1486120 original size:18 final size:18
Alignment explanation
Indices: 1486097--1486133 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1486087 CGAAATATAT
1486097 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1486115 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1486133 A
1 A
1486134 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1486543 original size:25 final size:25
Alignment explanation
Indices: 1486515--1486562 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
1486505 TTATTTTTCC
*
1486515 AATAATGTACCCATAACAATGTTCA
1 AATAATGTACCCACAACAATGTTCA
1486540 AATAATGTACCCACAACAATGTT
1 AATAATGTACCCACAACAATGTT
1486563 TAATTGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (25 bp):
AATAATGTACCCACAACAATGTTCA
Found at i:1486874 original size:23 final size:23
Alignment explanation
Indices: 1486848--1486906 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
1486838 AACCACTACC
1486848 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* *
1486871 TATTACATTATATAAACGCTACC
1 TATTACATTATATAAACGATACA
*
1486894 TATTACATCATAT
1 TATTACATTATAT
1486907 TTTTACCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:1487614 original size:183 final size:183
Alignment explanation
Indices: 1487272--1487615 Score: 532
Period size: 183 Copynumber: 1.9 Consensus size: 183
1487262 TAAATATGTA
* *
1487272 TCGACACTTTTTTAAATCGTATCGACAAATTTTTTTTCCAATCTGGACATAAAGTACCGACACAA
1 TCGACACTTTTTGAAATCGTATCGACAAATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* *
1487337 TATTAAAAAGTGTCGATATAGGTTGTAGACCGATTCGCGCATAAAACTGGTATATTTATACCGGT
66 TATTAAAAAGTGTCGATATAGGTTGTAGACCGATTCGCGAATAAAACTGGTATATTTATACCGGA
* *
1487402 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATG
131 TACATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAATG
*
1487455 TCGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACA
1 TCGACACTTTTTGA-AATCGTATCGACAAATTTTTCTTCCAATCTGGACATAAAGTACCGACACA
*
1487519 ATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGAATAAAA-TCGGTATATTTATACC-
65 ATATTAAAAAGTGTCGATATAGGTTGTAGACCGATTCGCGAATAAAACT-GGTATATTTATACCG
* * **
1487582 GATAGCATTGCAAATTTACCTATTTTATTATAAT
129 GATA-CATTACAAAATTACCTATTACATTATAAT
1487616 ATGTTGAAAG
Statistics
Matches: 146, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
182 4 0.03
183 139 0.95
184 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
TCGACACTTTTTGAAATCGTATCGACAAATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
TATTAAAAAGTGTCGATATAGGTTGTAGACCGATTCGCGAATAAAACTGGTATATTTATACCGGA
TACATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAATG
Found at i:1487990 original size:21 final size:21
Alignment explanation
Indices: 1487951--1488026 Score: 91
Period size: 23 Copynumber: 3.5 Consensus size: 21
1487941 GATAGATACT
*
1487951 TTACA-ATATAACCACTACCTA
1 TTACATATATAACGA-TACCTA
1487972 TTACATATATAACGATACCTA
1 TTACATATATAACGATACCTA
*
1487993 TTACATTATATAAGCGCTACCTA
1 TTACA-TATATAA-CGATACCTA
1488016 TTACATCATAT
1 TTACAT-ATAT
1488027 TTTACCTTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
21 16 0.33
22 16 0.33
23 17 0.35
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.34
Consensus pattern (21 bp):
TTACATATATAACGATACCTA
Found at i:1489613 original size:9 final size:9
Alignment explanation
Indices: 1489598--1489681 Score: 87
Period size: 9 Copynumber: 9.3 Consensus size: 9
1489588 ACTTGTTTGG
1489598 ATCATCATC
1 ATCATCATC
*
1489607 TTCATCATC
1 ATCATCATC
1489616 ATCATCATC
1 ATCATCATC
*
1489625 ATCATCGTC
1 ATCATCATC
*
1489634 ATCATCTTC
1 ATCATCATC
* *
1489643 ATCGTCAGC
1 ATCATCATC
* *
1489652 TTCATCGTC
1 ATCATCATC
1489661 ATCATCATC
1 ATCATCATC
* *
1489670 GTCATCTTC
1 ATCATCATC
1489679 ATC
1 ATC
1489682 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (9 bp):
ATCATCATC
Found at i:1489615 original size:12 final size:12
Alignment explanation
Indices: 1489598--1489693 Score: 90
Period size: 12 Copynumber: 8.2 Consensus size: 12
1489588 ACTTGTTTGG
1489598 ATCATCATCTTC
1 ATCATCATCTTC
1489610 ATCATCA---TC
1 ATCATCATCTTC
*
1489619 ATCATCATCATC
1 ATCATCATCTTC
*
1489631 GTCATCATCTTC
1 ATCATCATCTTC
* *
1489643 ATCGTCAGCTTC
1 ATCATCATCTTC
* *
1489655 ATCGTCATCATC
1 ATCATCATCTTC
*
1489667 ATCGTCATCTTC
1 ATCATCATCTTC
* *
1489679 ATCGTCAGCTTC
1 ATCATCATCTTC
1489691 ATC
1 ATC
1489694 TTCTGCGACC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
9 9 0.12
12 63 0.88
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.36
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:1489617 original size:6 final size:6
Alignment explanation
Indices: 1489598--1489681 Score: 87
Period size: 6 Copynumber: 14.0 Consensus size: 6
1489588 ACTTGTTTGG
* * *
1489598 ATCATC ATCTTC ATCATC ATCATC ATCATC ATCGTC ATCATC TTCATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * * *
1489646 GTCAGC TTCATC GTCATC ATCATC GTCATC TTCATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
1489682 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:1489682 original size:24 final size:24
Alignment explanation
Indices: 1489602--1489685 Score: 105
Period size: 24 Copynumber: 3.4 Consensus size: 24
1489592 GTTTGGATCA
* * *
1489602 TCATCTTCATCATCATCATCATCA
1 TCATCGTCATCATCATCGTCATCT
*
1489626 TCATCGTCATCATCTTCATCGTCAGCT
1 TCATCGTCATCA---TCATCGTCATCT
1489653 TCATCGTCATCATCATCGTCATCT
1 TCATCGTCATCATCATCGTCATCT
1489677 TCATCGTCA
1 TCATCGTCA
1489686 GCTTCATCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
24 31 0.60
27 21 0.40
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (24 bp):
TCATCGTCATCATCATCGTCATCT
Found at i:1489696 original size:6 final size:6
Alignment explanation
Indices: 1489602--1489696 Score: 73
Period size: 6 Copynumber: 15.3 Consensus size: 6
1489592 GTTTGGATCA
* * * * *
1489602 TCATCT TCATCA TCATCA TCATCA TCATCGT CATCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATC-T --TCATCT TCATCT TCATCT
* * * * *
1489653 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
1489697 TGCGACCGCT
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
6 66 0.92
8 1 0.01
9 5 0.07
ACGTcount: A:0.21, C:0.34, G:0.07, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:1491809 original size:200 final size:199
Alignment explanation
Indices: 1491147--1492490 Score: 2354
Period size: 200 Copynumber: 6.7 Consensus size: 199
1491137 TTTAAATTAG
1491147 TATCGACACAAACTA-AA-ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTATAATA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
* * *
1491210 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGA
65 ATTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGA
*
1491275 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGAAC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
*
1491340 AAAAC
195 AAAAA
*
1491345 TATCGACACAAACTA-AA-ACGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTAT
1 TATCGACACAAACTATAATA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
* *
1491408 ATTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGA
65 ATTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGA
* *
1491473 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGAAT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
1491538 AAAAA
195 AAAAA
* * *
1491543 TATCGACACAAACTAAAATAGTGTCGAAATATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
1491608 TTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGAAT
66 TTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
1491673 CGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
131 CGACACTTTTTATATATGGATCGACAC-TTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
1491738 AAAAA
195 AAAAA
*
1491743 TATCGACACAAACTATAATAGTGTCGACACGTTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
1491808 TTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGTTTTTTGGAT
66 TTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
*
1491873 CGACACTTTTTATATATGAATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
1491938 AAAA
196 AAAA
* * *
1491942 TATCGACACAAACTAAAATAGTGTCGAAATATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1492007 TTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
66 TTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
1492072 CGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
131 CGACACTTTTTATATATGGATCGACAC-TTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
1492137 AAAAA
195 AAAAA
*
1492142 TATCGACATAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
1492207 TTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTAGGTTCGATGTTTTTAGGAT
66 TTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
1492272 CGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
131 CGACACTTTTTATATATGGATCGACAC-TTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
1492337 AAAAA
195 AAAAA
**
1492342 TATCGACATTAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1492407 TTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
66 TTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
1492472 CGACACTTTTTATATATGG
131 CGACACTTTTTATATATGG
1492491 TTGCACCCTG
Statistics
Matches: 1097, Mismatches: 45, Indels: 6
0.96 0.04 0.01
Matches are distributed among these distances:
198 205 0.19
199 323 0.29
200 569 0.52
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (199 bp):
TATCGACACAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
TTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAA
Found at i:1491902 original size:399 final size:399
Alignment explanation
Indices: 1491147--1492490 Score: 2390
Period size: 399 Copynumber: 3.4 Consensus size: 399
1491137 TTTAAATTAG
* *
1491147 TATCGACACAAACTAAAA-CGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGAAACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
1491211 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 TTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
*
1491276 CGACACTTTTTATATATGGATCGACAC-TTTATGGTTGCACCCTGTTTTCCATTCATTATGGAAC
131 CGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
* *
1491340 AAAACTATCGACACAAACTA-AA-ACGTGTCGACACATTATTTAGACATATCCTCTCATAAAACC
196 AAAAATATCGACACAAACTATAATA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
1491403 GGTATATTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTT
260 GGTATATTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTT
* *
1491468 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCT
325 TAGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
*
1491533 GGAATAAAAA
390 GGAACAAAAA
*
1491543 TATCGACACAAACTAAAATAGTGTCGAAATATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGAAACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
1491608 TTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGAAT
66 TTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
1491673 CGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
131 CGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
*
1491738 AAAAATATCGACACAAACTATAATAGTGTCGACACGTTATTTAGACATATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
*
1491803 GTATATTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGTTTTT
261 GTATATTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTT
* *
1491868 TGGATCGACACTTTTTATATATGAATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
326 AGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
1491933 GAACAAAAA
391 GAACAAAAA
*
1491942 TATCGACACAAACTAAAATAGTGTCGAAATATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGAAACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1492007 TTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
66 TTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
1492072 CGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
131 CGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
*
1492137 AAAAATATCGACATAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
* * *
1492202 GTATATTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTAGGTTCGATGTTTTT
261 GTATATTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTT
1492267 AGGATCGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCT
326 AGGATCGACACTTTTTATATATGGATCGACAC-TTTATGGTTGCACCCTGTTTTCCATTCATTCT
1492332 GGAACAAAAA
390 GGAACAAAAA
** * *
1492342 TATCGACATTAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGAAACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1492407 TTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
66 TTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
1492472 CGACACTTTTTATATATGG
131 CGACACTTTTTATATATGG
1492491 TTGCACCCTG
Statistics
Matches: 912, Mismatches: 31, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
396 18 0.02
397 132 0.14
398 55 0.06
399 521 0.57
400 186 0.20
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (399 bp):
TATCGACACAAACTAAAATAGTGTCGAAACATTATTTAGACATATTCTCTCATAAAACCGGTATA
TTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
CGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
AAAAATATCGACACAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
GTATATTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTT
AGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
GAACAAAAA
Found at i:1492301 original size:599 final size:597
Alignment explanation
Indices: 1491147--1492489 Score: 2411
Period size: 599 Copynumber: 2.2 Consensus size: 597
1491137 TTTAAATTAG
1491147 TATCGACACAAACTA-AA-ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTATAATA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
* * * *
1491210 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGA
65 ATTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGA
*
1491275 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGAAC
130 TCGACACTTTTTATATATGAATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGAAC
* * *
1491340 AAAACTATCGACACAAACTAAAACGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
195 AAAAATATCGACACAAACTAAAAAGTGTCGAAACATTATTTAGACATATCCTCTCATAAAACCGG
* *
1491405 TATATTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTG
260 TATATTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTA
1491470 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGG
* *
1491535 AATAAAAATATCGACACAAACTAAAATAGTGTCGAAATATTATTTAGACATATTCTCTCATAAAA
390 AACAAAAATATCGACACAAACTAAAATAGTGTCGAAACATTATTTAGACATATTCTCTCATAAAA
*
1491600 CCGGTATATTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTT
455 CCGGTATATTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTAGGTTCGATGTT
1491665 TTTAGAATCGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCAT
520 TTTAGAATCGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCAT
1491730 TCTGGAACAAAAA
585 TCTGGAACAAAAA
*
1491743 TATCGACACAAACTATAATAGTGTCGACACGTTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
1491808 TTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGTTTTTTGGAT
66 TTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
*
1491873 CGACACTTTTTATATATGAATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGAATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGAACA
* *
1491938 AAAATATCGACACAAACTAAAATAGTGTCGAAATATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAAA-AGTGTCGAAACATTATTTAGACATATCCTCTCATAAAACCGG
1492003 TATATTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTA
260 TATATTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTA
*
1492068 GGATCGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
325 GGATCGACACTTTTTATATATGGATCGACAC-TTTATGGTTGCACCCTATTTTCCATTCATTCTG
* * *
1492133 GAACAAAAATATCGACATAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
389 GAACAAAAATATCGACACAAACTAAAATAGTGTCGAAACATTATTTAGACATATTCTCTCATAAA
1492198 ACCGGTATATTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTAGGTTCGATGT
454 ACCGGTATATTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTAGGTTCGATGT
*
1492263 TTTTAGGATCGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCA
519 TTTTAGAATCGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCA
1492328 TTCTGGAACAAAAA
584 TTCTGGAACAAAAA
**
1492342 TATCGACATTAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1492407 TTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
66 TTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
1492472 CGACACTTTTTATATATG
131 CGACACTTTTTATATATG
1492490 GTTGCACCCT
Statistics
Matches: 715, Mismatches: 28, Indels: 5
0.96 0.04 0.01
Matches are distributed among these distances:
596 15 0.02
597 190 0.27
598 133 0.19
599 377 0.53
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (597 bp):
TATCGACACAAACTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
TTTATACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGAT
CGACACTTTTTATATATGAATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGAACA
AAAATATCGACACAAACTAAAAAGTGTCGAAACATTATTTAGACATATCCTCTCATAAAACCGGT
ATATTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAG
GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGA
ACAAAAATATCGACACAAACTAAAATAGTGTCGAAACATTATTTAGACATATTCTCTCATAAAAC
CGGTATATTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTAGGTTCGATGTTT
TTAGAATCGACACTTTTTATATATGGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATT
CTGGAACAAAAA
Found at i:1492652 original size:19 final size:19
Alignment explanation
Indices: 1492625--1492669 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
1492615 ATTAACATAA
*
1492625 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
**
1492644 AAAATTATAAATTTTATAC
1 AAAATTATAAATCGTATAC
1492663 AAAATTA
1 AAAATTA
1492670 ACCCTACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:1494482 original size:33 final size:33
Alignment explanation
Indices: 1494445--1494510 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1494435 CATCTTAATA
*
1494445 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
1494478 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
1494511 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:1494572 original size:21 final size:21
Alignment explanation
Indices: 1494543--1494586 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1494533 CCCCTTATGC
1494543 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* * *
1494564 CTCTTAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
1494585 CT
1 CT
1494587 TGATTGTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:1496837 original size:20 final size:19
Alignment explanation
Indices: 1496791--1496837 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1496781 TCCGGTATCA
*
1496791 TTTTACCGGTTTTATCATT
1 TTTTACCGATTTTATCATT
*
1496810 TTGATACCGATTTTATCATAT
1 TT-TTACCGATTTTATCAT-T
1496831 TTTTACC
1 TTTTACC
1496838 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCGATTTTATCATT
Found at i:1496998 original size:20 final size:20
Alignment explanation
Indices: 1496972--1497017 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
1496962 TCCGGTAACG
1496972 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
1496991 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
1497012 TTTACC
1 TTTACC
1497018 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:1497851 original size:229 final size:229
Alignment explanation
Indices: 1497066--1498237 Score: 2088
Period size: 229 Copynumber: 5.1 Consensus size: 229
1497056 ACTTTTATAC
*
1497066 GTATTGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
1497131 TTTTTAATAGTGTTTCATG-TTTCCACCTACAATA-TAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
1497194 TTATTTGATTATTTGATATTTTAT-AAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
*
1497258 GATAATAATAAATATGTTTTCTACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
* * *
1497292 GTATGGACAATTTTATAAAAATGATATATACTTTTTTGGAAGTTATGTAATTTATGTTTCAATAT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
* * *
1497357 TTTTTAATAGTATTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACGCAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
1497422 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAA-TTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
1497486 GATAATAAT-AATATG-TTTCCACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
1497518 GTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
* * *
1497583 TTTTTAATAGTATTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACGCAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
1497648 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
1497713 GATAATAATAAATATGTTTTCCACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
* **
1497747 GTATGGACACTTTTATAAAATTGATATATTTTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
1497812 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
*
1497877 TTATTTGATTATTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
1497942 GATAATAATAAATATGTTTTCCACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
* *
1497976 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
* *
1498041 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAATA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
* *
1498106 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGGATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
*
1498171 GATAATAATAAATATATTTT-CACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
*
1498204 GTATGGACACTTTTATAAAAATGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
1498238 ACAATATAAC
Statistics
Matches: 909, Mismatches: 31, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
226 267 0.29
227 48 0.05
228 130 0.14
229 464 0.51
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (229 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
GATAATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:1497919 original size:455 final size:458
Alignment explanation
Indices: 1497066--1498237 Score: 2088
Period size: 455 Copynumber: 2.6 Consensus size: 458
1497056 ACTTTTATAC
*
1497066 GTATTGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
1497131 TTTTTAATAGTGTTTCATG-TTTCCACCTACAATA-TAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
1497194 TTATTTGATTATTTGATATTTTAT-AAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
* *
1497258 GATAATAATAAATATGTTTTCTACAGTGAAATAAGTATGGACAATTTTATAAAAATGATATATAC
196 GATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATAC
* *
1497323 TTTTTTGGAAGTTATGTAATTTATGTTTCAATATTTTTTAATAGTATTTTATGTTTTCCACCTAC
261 TTTTTTGAAAGTTATGTAATTTATGTTTCAATATTTTTTAATAGTATTTCATGTTTTCCACCTAC
* *
1497388 AATATTAATTTAATAATTTCATTTACGCAAAAAATTATTTGATTATTTGATATTTTATAAAATAT
326 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTATTTGATATTTTATAAAATAA
1497453 TATTTAGAATTTAAA-TTAACAATATTAACCAAAGATAATAAT-AATATG-TTTCCACAGTGAAA
391 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTTTTCCACAGTGAAA
1497515 TAA
456 TAA
1497518 GTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
* * *
1497583 TTTTTAATAGTATTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACGCAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
1497648 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
* **
1497713 GATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAATTGATATATTT
196 GATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATAC
* *
1497778 TTTTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAC
261 TTTTTTGAAAGTTATGTAATTTATGTTTCAATATTTTTTAATAGTATTTCATGTTTTCCACCTAC
1497843 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTATTTGATATTTTATAAAATAA
326 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTATTTGATATTTTATAAAATAA
1497908 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTTTTCCACAGTGAAA
391 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTTTTCCACAGTGAAA
1497973 TAA
456 TAA
* *
1497976 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
* *
1498041 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAATA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
* *
1498106 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGGATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
* *
1498171 GATAATAATAAATATATTTT-CACAGTGAAATAAGTATGGACACTTTTATAAAAATGATAGATAC
196 GATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATAC
1498235 TTT
261 TTT
1498238 ACAATATAAC
Statistics
Matches: 685, Mismatches: 29, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
452 81 0.12
453 15 0.02
454 52 0.08
455 239 0.35
456 27 0.04
457 49 0.07
458 222 0.32
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (458 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
GATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATAC
TTTTTTGAAAGTTATGTAATTTATGTTTCAATATTTTTTAATAGTATTTCATGTTTTCCACCTAC
AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTATTTGATATTTTATAAAATAA
TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTTTTCCACAGTGAAA
TAA
Found at i:1499281 original size:21 final size:21
Alignment explanation
Indices: 1499251--1499298 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
1499241 TAATTTTCAA
*
1499251 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
1499272 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
1499293 ACATTG
1 ACATTG
1499299 CAATATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:1503930 original size:21 final size:21
Alignment explanation
Indices: 1503900--1503948 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1503890 TAATTTTCAA
*
1503900 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
1503921 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
1503942 ACATTGT
1 ACATTGT
1503949 AATATTAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:1510904 original size:26 final size:23
Alignment explanation
Indices: 1510861--1510932 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 23
1510851 CAGATTATGT
* * *
1510861 TATAATAAATATTTAAAATATTGA
1 TATATTAATTATTAAAAATATT-A
1510885 TATAAATTAATTATTAAAAA-ATTA
1 TAT--ATTAATTATTAAAAATATTA
* *
1510909 TATATTAATGATTAAGAA-ATTA
1 TATATTAATTATTAAAAATATTA
1510931 TA
1 TA
1510933 AAAAATTAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 19 0.46
24 7 0.17
25 3 0.07
26 12 0.29
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (23 bp):
TATATTAATTATTAAAAATATTA
Found at i:1510915 original size:22 final size:22
Alignment explanation
Indices: 1510885--1510934 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
1510875 AAAATATTGA
*
1510885 TATAAATTAATTATTAAAAAAT
1 TATAAATTAATGATTAAAAAAT
* *
1510907 TATATATTAATGATTAAGAAAT
1 TATAAATTAATGATTAAAAAAT
1510929 TATAAA
1 TATAAA
1510935 AAATTAGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
TATAAATTAATGATTAAAAAAT
Found at i:1513718 original size:95 final size:95
Alignment explanation
Indices: 1513592--1513783 Score: 339
Period size: 95 Copynumber: 2.0 Consensus size: 95
1513582 ATGTAATGCT
1513592 TTGCTCCGACAAGTGCCTTTCCGTTTGGGGTGTCAAATAAATGTAAGATCGATTTAGATCTTCAC
1 TTGCTCCGACAAGTGCCTTTCCGTTTGGGGTGTCAAATAAATGTAAGATCGATTTAGATCTTCAC
*
1513657 TTGTATGTGTGATTCAATAAGTTGGAGTTA
66 TTGTATGTGTGATTCAATAAGCTGGAGTTA
* * *
1513687 TTGCTCCGATAAGTGCCTTTCCTTTTGGGGTGTCAAATAAATTTAAGATCGATTTAGATCTTCAC
1 TTGCTCCGACAAGTGCCTTTCCGTTTGGGGTGTCAAATAAATGTAAGATCGATTTAGATCTTCAC
*
1513752 TTGTTTGTGTGATTCAATAAGCTGGAGTTA
66 TTGTATGTGTGATTCAATAAGCTGGAGTTA
1513782 TT
1 TT
1513784 CTGTTGTTCT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (95 bp):
TTGCTCCGACAAGTGCCTTTCCGTTTGGGGTGTCAAATAAATGTAAGATCGATTTAGATCTTCAC
TTGTATGTGTGATTCAATAAGCTGGAGTTA
Found at i:1518280 original size:31 final size:29
Alignment explanation
Indices: 1518198--1518255 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
1518188 TTAATTATAG
* *
1518198 AATATTTTACGTACCTATTTTGACCAAAA
1 AATACTTTAAGTACCTATTTTGACCAAAA
1518227 AATACTTTAAGTACCTATTTTGACCAAAA
1 AATACTTTAAGTACCTATTTTGACCAAAA
1518256 TGATAACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (29 bp):
AATACTTTAAGTACCTATTTTGACCAAAA
Found at i:1523808 original size:25 final size:25
Alignment explanation
Indices: 1523772--1523826 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
1523762 CATATTAATT
1523772 TCAATTTCTCAACTATTGTCCAATC
1 TCAATTTCTCAACTATTGTCCAATC
*
1523797 TCAATTTGTCAACTATTGTCCAATC
1 TCAATTTCTCAACTATTGTCCAATC
1523822 TCAAT
1 TCAAT
1523827 CAATCAAGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.29, C:0.25, G:0.05, T:0.40
Consensus pattern (25 bp):
TCAATTTCTCAACTATTGTCCAATC
Found at i:1523833 original size:25 final size:25
Alignment explanation
Indices: 1523780--1523833 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
1523770 TTTCAATTTC
***
1523780 TCAACTATTGTCCAATCTCAATTTG
1 TCAACTATTGTCCAATCTCAATCAA
1523805 TCAACTATTGTCCAATCTCAATCAA
1 TCAACTATTGTCCAATCTCAATCAA
1523830 TCAA
1 TCAA
1523834 GACCCAAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (25 bp):
TCAACTATTGTCCAATCTCAATCAA
Found at i:1523867 original size:26 final size:27
Alignment explanation
Indices: 1523831--1523884 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 27
1523821 CTCAATCAAT
1523831 CAAGACCCAAAG-CTATATC-CCACCAC
1 CAAGACCCAAAGTC-ATATCTCCACCAC
1523857 CAAGACCCAAAGTCATATCTCCACCAC
1 CAAGACCCAAAGTCATATCTCCACCAC
1523884 C
1 C
1523885 GATGGTATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.37, C:0.43, G:0.07, T:0.13
Consensus pattern (27 bp):
CAAGACCCAAAGTCATATCTCCACCAC
Found at i:1533317 original size:23 final size:23
Alignment explanation
Indices: 1533290--1533334 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
1533280 ACGAATCGTG
1533290 CGGATCTGACGGACGGGAATCAT
1 CGGATCTGACGGACGGGAATCAT
1533313 CGGATCTGACGGACGGGAATCA
1 CGGATCTGACGGACGGGAATCA
1533335 CCAGATCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.22, G:0.36, T:0.16
Consensus pattern (23 bp):
CGGATCTGACGGACGGGAATCAT
Found at i:1533341 original size:23 final size:23
Alignment explanation
Indices: 1533292--1533342 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
1533282 GAATCGTGCG
* *
1533292 GATCTGACGGACGGGAATCATCG
1 GATCTGACGGACGGGAATCACCA
1533315 GATCTGACGGACGGGAATCACCA
1 GATCTGACGGACGGGAATCACCA
1533338 GATCT
1 GATCT
1533343 AACCGACCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.31, T:0.18
Consensus pattern (23 bp):
GATCTGACGGACGGGAATCACCA
Found at i:1533595 original size:18 final size:17
Alignment explanation
Indices: 1533567--1533600 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
1533557 TAGAAAAAAG
1533567 TCAACGTCGGTCAACGA
1 TCAACGTCGGTCAACGA
1533584 TCAACGGTCGGTCAACG
1 TCAAC-GTCGGTCAACG
1533601 GTTGACCGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.18
Consensus pattern (17 bp):
TCAACGTCGGTCAACGA
Found at i:1534868 original size:22 final size:21
Alignment explanation
Indices: 1534830--1534871 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
1534820 AAAACCCTAA
* *
1534830 GTTATAATTTATTATTTAGAT
1 GTTATAAGTTATGATTTAGAT
1534851 GTTATAAGGTTATGATTTAGA
1 GTTATAA-GTTATGATTTAGA
1534872 ATTTACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (21 bp):
GTTATAAGTTATGATTTAGAT
Found at i:1536626 original size:14 final size:14
Alignment explanation
Indices: 1536607--1536644 Score: 62
Period size: 12 Copynumber: 2.9 Consensus size: 14
1536597 CATCATGGCC
1536607 CTTAGACTAACACG
1 CTTAGACTAACACG
1536621 CTTAGACT-A-ACG
1 CTTAGACTAACACG
1536633 CTTAGACTAACA
1 CTTAGACTAACA
1536645 TGCACCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.50
13 2 0.09
14 9 0.41
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (14 bp):
CTTAGACTAACACG
Found at i:1542192 original size:22 final size:22
Alignment explanation
Indices: 1542166--1542228 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
1542156 AATAATTATA
1542166 TCTTTATGACACGATTTTTCTG
1 TCTTTATGACACGATTTTTCTG
* * *
1542188 TCTTTTTGGCACGTTTTTATCTG
1 TCTTTATGACACGATTTT-TCTG
*
1542211 TATTTATGACAC-ATTTTT
1 TCTTTATGACACGATTTTT
1542229 GGTCATTTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 1 0.03
22 19 0.58
23 13 0.39
ACGTcount: A:0.17, C:0.16, G:0.13, T:0.54
Consensus pattern (22 bp):
TCTTTATGACACGATTTTTCTG
Found at i:1542227 original size:23 final size:22
Alignment explanation
Indices: 1542168--1542228 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
1542158 TAATTATATC
*
1542168 TTTATGACACGA-TTTTTCTGTC
1 TTTATGACAC-ATTTTTTCTGTA
* * *
1542190 TTTTTGGCACGTTTTTATCTGTA
1 TTTATGACACATTTTT-TCTGTA
1542213 TTTATGACACATTTTT
1 TTTATGACACATTTTT
1542229 GGTCATTTGA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.18, C:0.15, G:0.13, T:0.54
Consensus pattern (22 bp):
TTTATGACACATTTTTTCTGTA
Found at i:1543910 original size:29 final size:29
Alignment explanation
Indices: 1543868--1543984 Score: 180
Period size: 29 Copynumber: 4.0 Consensus size: 29
1543858 CTTCCCAACA
* *
1543868 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCACGCCGGGCGACCTTG
* *
1543897 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCACGCCGGGCGACCTTG
*
1543926 TAGGTCGCCATGCACGCCAGGCGACCTTG
1 TAGGTCGCCATGCACGCCGGGCGACCTTG
*
1543955 TAGGTCGCCATGCACGCTGGGCGACCTTG
1 TAGGTCGCCATGCACGCCGGGCGACCTTG
1543984 T
1 T
1543985 CCTGCGCCTT
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 83 1.00
ACGTcount: A:0.13, C:0.35, G:0.32, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCGGGCGACCTTG
Found at i:1544020 original size:22 final size:22
Alignment explanation
Indices: 1543992--1544033 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1543982 TGTCCTGCGC
**
1543992 CTTGCTCCCCGTTGCATGCTCG
1 CTTGCTCCCCACTGCATGCTCG
1544014 CTTGCTCCCCACTGCATGCT
1 CTTGCTCCCCACTGCATGCT
1544034 GGAGACCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.43, G:0.19, T:0.31
Consensus pattern (22 bp):
CTTGCTCCCCACTGCATGCTCG
Found at i:1545558 original size:18 final size:19
Alignment explanation
Indices: 1545523--1545559 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1545513 CAAGGAATGT
1545523 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1545543 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1545560 CGATTACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1551820 original size:119 final size:119
Alignment explanation
Indices: 1551609--1551837 Score: 361
Period size: 119 Copynumber: 1.9 Consensus size: 119
1551599 CTGAACTTAG
* * *
1551609 TAAAACTTAATGTTTGAAATTATTGTTTACAAACCTATTTAATATTTTAATAATAATTTAGGAAT
1 TAAAACTTAACGTTTGAAATTATTGTTTACAAACCTATTTAATATTTTAACAATAATTTAGAAAT
* * *
1551674 AAAATTAAATAATATATTTTTAACATTATTACATTATCAATTTAAAACTTAACT
66 AAAATAAAATAATATATTTTTAACATTATGACATCATCAATTTAAAACTTAACT
* *
1551728 TAAAACTTAACGTTTGAAATTATTGTTTACAAACCTTTTTAATATTTTAACAGTAATTTAGAAAT
1 TAAAACTTAACGTTTGAAATTATTGTTTACAAACCTATTTAATATTTTAACAATAATTTAGAAAT
*
1551793 AAAATAAAATATTA-ATTTTTTAACATTATGACATCATCAATTTAA
66 AAAATAAAATAATATA-TTTTTAACATTATGACATCATCAATTTAA
1551838 CGGGAATGAT
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
118 1 0.01
119 99 0.99
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (119 bp):
TAAAACTTAACGTTTGAAATTATTGTTTACAAACCTATTTAATATTTTAACAATAATTTAGAAAT
AAAATAAAATAATATATTTTTAACATTATGACATCATCAATTTAAAACTTAACT
Found at i:1566940 original size:4 final size:4
Alignment explanation
Indices: 1566926--1566955 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
1566916 TTTTAACGTT
1566926 TTAA TTTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA -TTAA TTAA TTAA TTAA TTAA TTAA T
1566956 GCATTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:1574844 original size:14 final size:15
Alignment explanation
Indices: 1574825--1574856 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1574815 TAATGTAATT
1574825 AATAATTTA-TTTTA
1 AATAATTTACTTTTA
1574839 AATAATTTACTTTTA
1 AATAATTTACTTTTA
1574854 AAT
1 AAT
1574857 TTTAACTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
AATAATTTACTTTTA
Found at i:1583901 original size:2 final size:2
Alignment explanation
Indices: 1583896--1583940 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1583886 GCAGACACAC
1583896 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1583938 AG A
1 AG A
1583941 AATTATATGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1590892 original size:18 final size:20
Alignment explanation
Indices: 1590864--1590900 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1590854 GAAAGAATTG
1590864 AAATAAAATTTA-TATTTTT
1 AAATAAAATTTATTATTTTT
1590883 AAAT-AAATTTATTATTTT
1 AAATAAAATTTATTATTTT
1590901 CACACTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATAAAATTTATTATTTTT
Found at i:1591250 original size:31 final size:33
Alignment explanation
Indices: 1591210--1591271 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
1591200 GGCCGCCAAC
* *
1591210 TCTCGATCTCTTTAG-C-CTAAATCCTAAAATA
1 TCTCAATCTCTCTAGTCTCTAAATCCTAAAATA
*
1591241 TCTCAATCTCTCTAGTCTCTAAATCTTAAAA
1 TCTCAATCTCTCTAGTCTCTAAATCCTAAAA
1591272 CTCTTCAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 13 0.50
32 1 0.04
33 12 0.46
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (33 bp):
TCTCAATCTCTCTAGTCTCTAAATCCTAAAATA
Found at i:1592113 original size:17 final size:18
Alignment explanation
Indices: 1592080--1592124 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
1592070 GTTCTCCCTA
*
1592080 TTCTTCCTTTCCCCTTTT
1 TTCTTCCGTTCCCCTTTT
1592098 TTCTTCCGTT-CCCTTTT
1 TTCTTCCGTTCCCCTTTT
1592115 TTCTTCCGTT
1 TTCTTCCGTT
1592125 TACCTTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.00, C:0.36, G:0.04, T:0.60
Consensus pattern (18 bp):
TTCTTCCGTTCCCCTTTT
Found at i:1592130 original size:18 final size:17
Alignment explanation
Indices: 1592092--1592130 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
1592082 CTTCCTTTCC
*
1592092 CCTTTTTTCTTCCGTTC
1 CCTTTTTTCTTCCGTTA
1592109 CCTTTTTTCTTCCGTTTA
1 CCTTTTTTCTTCCG-TTA
1592127 CCTT
1 CCTT
1592131 GATTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.03, C:0.33, G:0.05, T:0.59
Consensus pattern (17 bp):
CCTTTTTTCTTCCGTTA
Found at i:1595611 original size:21 final size:20
Alignment explanation
Indices: 1595570--1595610 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1595560 TTGGGTTGGA
1595570 TCAAATTTCTAATAAGATTT
1 TCAAATTTCTAATAAGATTT
*
1595590 TCAATTTTCTTAATAAG-TTT
1 TCAAATTTC-TAATAAGATTT
1595610 T
1 T
1595611 TTTATCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (20 bp):
TCAAATTTCTAATAAGATTT
Found at i:1597032 original size:31 final size:30
Alignment explanation
Indices: 1596997--1597069 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
1596987 GAATTTTATG
1596997 TAAGGGGGGCGAACTTGAACTTATAAAAATT
1 TAAGGGGGGCGAACTTGAACTTAT-AAAATT
* **
1597028 TAAGGTGGGTAAACTTGAACTTATAAAATT
1 TAAGGGGGGCGAACTTGAACTTATAAAATT
*
1597058 TTA-GGGGGCGAA
1 TAAGGGGGGCGAA
1597070 AACATATTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
29 6 0.17
30 8 0.23
31 21 0.60
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.27
Consensus pattern (30 bp):
TAAGGGGGGCGAACTTGAACTTATAAAATT
Found at i:1604334 original size:30 final size:30
Alignment explanation
Indices: 1604300--1604492 Score: 203
Period size: 30 Copynumber: 6.5 Consensus size: 30
1604290 CAATTGTTTC
*
1604300 GGTGGAGGTGGTGATGAGATTTTGGGTGTT
1 GGTGGCGGTGGTGATGAGATTTTGGGTGTT
* *
1604330 GGTGGCGGTGGTGATGGGACTTTGGG-GTT
1 GGTGGCGGTGGTGATGAGATTTTGGGTGTT
* *
1604359 GGTGGCGGTGGCGATGAGCTTTTGGGTGTT
1 GGTGGCGGTGGTGATGAGATTTTGGGTGTT
*
1604389 GGTGGCGGTGGTGATGAGACTTTGGGTG-T
1 GGTGGCGGTGGTGATGAGATTTTGGGTGTT
* * **
1604418 GGT-GCGGTGGCGATGAGCTTTTGGGTGGGC
1 GGTGGCGGTGGTGATGAGATTTTGGGT-GTT
* * * * *
1604448 GGTGGTGGTGGTGATGAGCTTTGGGGGGTG
1 GGTGGCGGTGGTGATGAGATTTTGGGTGTT
*
1604478 GTGTGGTGGTGGTGA
1 G-GTGGCGGTGGTGA
1604493 CGAAGGTGAG
Statistics
Matches: 138, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
28 20 0.14
29 30 0.22
30 56 0.41
31 32 0.23
ACGTcount: A:0.08, C:0.06, G:0.54, T:0.32
Consensus pattern (30 bp):
GGTGGCGGTGGTGATGAGATTTTGGGTGTT
Found at i:1604375 original size:59 final size:60
Alignment explanation
Indices: 1604300--1604480 Score: 253
Period size: 59 Copynumber: 3.1 Consensus size: 60
1604290 CAATTGTTTC
* * * *
1604300 GGTGGAGGTGGTGATGAGATTTTGGGTGTTGGTGGCGGTGGTGATGGGACTTTGGGGT-T
1 GGTGGCGGTGGCGATGAGCTTTTGGGTGTTGGTGGCGGTGGTGATGAGACTTTGGGGTGT
1604359 GGTGGCGGTGGCGATGAGCTTTTGGGTGTTGGTGGCGGTGGTGATGAGACTTT-GGGTGT
1 GGTGGCGGTGGCGATGAGCTTTTGGGTGTTGGTGGCGGTGGTGATGAGACTTTGGGGTGT
** * *
1604418 GGT-GCGGTGGCGATGAGCTTTTGGGTGGGCGGTGGTGGTGGTGATGAG-CTTTGGGGGGT
1 GGTGGCGGTGGCGATGAGCTTTTGGGT-GTTGGTGGCGGTGGTGATGAGACTTTGGGGTGT
1604477 GGTG
1 GGTG
1604481 TGGTGGTGGT
Statistics
Matches: 110, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
58 31 0.28
59 79 0.72
ACGTcount: A:0.08, C:0.07, G:0.54, T:0.31
Consensus pattern (60 bp):
GGTGGCGGTGGCGATGAGCTTTTGGGTGTTGGTGGCGGTGGTGATGAGACTTTGGGGTGT
Found at i:1605876 original size:30 final size:30
Alignment explanation
Indices: 1605832--1605909 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
1605822 AAAAGTTCGA
* *
1605832 TAATAATTATTTTATAGT-ATTTAGATAAATT
1 TAATAAGTA-TTTATAATCATTTA-ATAAATT
* *
1605863 TATTAA-TAATTTATAATCTTTTAATAAATT
1 TAATAAGT-ATTTATAATCATTTAATAAATT
1605893 TAATAAGTATTTATAAT
1 TAATAAGTATTTATAAT
1605910 TTTTTAAACT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 29 0.73
31 11 0.28
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (30 bp):
TAATAAGTATTTATAATCATTTAATAAATT
Found at i:1605915 original size:30 final size:30
Alignment explanation
Indices: 1605851--1605916 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
1605841 TTTTATAGTA
*
1605851 TTTAGATAAATTTATTAATAATTTATAATCT
1 TTTA-ATAAATTTAATAATAATTTATAATCT
*
1605882 TTTAATAAATTTAATAAGT-ATTTATAATTT
1 TTTAATAAATTTAATAA-TAATTTATAATCT
1605912 TTTAA
1 TTTAA
1605917 ACTTTATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (30 bp):
TTTAATAAATTTAATAATAATTTATAATCT
Found at i:1606682 original size:31 final size:31
Alignment explanation
Indices: 1606630--1606690 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
1606620 ATATACTTAT
* *
1606630 TAAATTTATTAAAAGATTATAAAATTATTAA
1 TAAATTTATTAAAAGACTATAAAATAATTAA
*
1606661 TAAATTTATCT-AAATACTATAAAATAATTA
1 TAAATTTAT-TAAAAGACTATAAAATAATTA
1606691 TATTATGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (31 bp):
TAAATTTATTAAAAGACTATAAAATAATTAA
Found at i:1610827 original size:180 final size:183
Alignment explanation
Indices: 1610585--1610940 Score: 528
Period size: 180 Copynumber: 2.0 Consensus size: 183
1610575 TAACCGAAAT
* *
1610585 AAAATTTTAAATATTATATATAACATATGGTTCAGCCCAAACTATTTAAAACTCAATTAATAATT
1 AAAATATTAAATATTATATATAACATATGGTTCAGACCAAACTATTTAAAACTCAATTAATAATT
** *
1610650 TAAGATCCAATAACTCTTAAGTCTAAATCAATATTAATTAGTTAAAAAA-TTATATAAA-ATTTA
66 TAAGATCCAATAACTCTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAATATTTA
* *
1610713 TTTTATAATTATATA-T-TTTAAATTAATTGTAAATTGTTTTTTTGAATTTAA
131 TTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTGAATTTAA
1610764 AAAATATT-AATATATATATATAACATATGGGTTCAGACCAAA-TCATTTAAAA-TCCAATTAAT
1 AAAATATTAAATAT-TATATATAACATAT-GGTTCAGACCAAACT-ATTTAAAACT-CAATTAAT
* *
1610826 AATTTAAGATCCGATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAATT
62 AATTTAAGATCCAATAACTCTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAA-T
*
1610891 TTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTT
126 ATTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTT
1610941 TTTTGAATTA
Statistics
Matches: 158, Mismatches: 10, Indels: 12
0.88 0.06 0.07
Matches are distributed among these distances:
178 5 0.03
179 23 0.15
180 76 0.48
181 9 0.06
183 19 0.12
184 1 0.01
185 25 0.16
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.43
Consensus pattern (183 bp):
AAAATATTAAATATTATATATAACATATGGTTCAGACCAAACTATTTAAAACTCAATTAATAATT
TAAGATCCAATAACTCTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAATATTTA
TTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTGAATTTAA
Found at i:1610928 original size:44 final size:42
Alignment explanation
Indices: 1610880--1610976 Score: 99
Period size: 44 Copynumber: 2.3 Consensus size: 42
1610870 ATTAAAAAAT
* *
1610880 TTATATAAATTTTTTATTTTAT-AATTATATATTATTTAAATTAA
1 TTATATAAATTTTTT-TTTTATGAATTATAAAATATTT-AATT-A
* * *
1610924 TTATA-AACTGTTTTTTTTTTTGAATTATAAAATATTTAATTT
1 TTATATAAAT-TTTTTTTTTATGAATTATAAAATATTTAATTA
1610966 TTATATAAATT
1 TTATATAAATT
1610977 AGAAAATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
42 6 0.14
43 15 0.34
44 23 0.52
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (42 bp):
TTATATAAATTTTTTTTTTATGAATTATAAAATATTTAATTA
Found at i:1616210 original size:82 final size:80
Alignment explanation
Indices: 1616069--1616346 Score: 281
Period size: 82 Copynumber: 3.4 Consensus size: 80
1616059 TACATCACTT
* * * * * * *
1616069 AAAAGTTGCATAAGATGATAATTCACCACTATGTCATCCGTTTTTTAAATATTTATTTAAATTAT
1 AAAAGTTACAGAAGATGATAATGCACCACTATTTCA-CCG-TTTTTAAAAAATTGTTTAAATTAT
* *
1616134 GCATTGAATGGCCTTTG
64 GCATTGAATGACCTCTG
* *
1616151 AAAAGTTACAGAAGATGATAATGCACCACTATTTCACACGTTATTTGAAAAGTTGTTTAAATTAT
1 AAAAGTTACAGAAGATGATAATGCACCACTATTTCAC-CGTT-TTTAAAAAATTGTTTAAATTAT
* *
1616216 GCATTAAATGACATCTG
64 GCATTGAATGACCTCTG
* * ** * *
1616233 ACAAGTTGCAGAAGATGATAATGCACCGTTATTTCACCCCTTGTCTAAAAAATTGTTTAAATTAT
1 AAAAGTTACAGAAGATGATAATGCACCACTATTTCA-CCGTT-TTTAAAAAATTGTTTAAATTAT
*
1616298 GTATTGAAT-ACACTCT-
64 GCATTGAATGAC-CTCTG
* *
1616314 AAAAATTACAGAAGATGATAATGCATCACTATT
1 AAAAGTTACAGAAGATGATAATGCACCACTATT
1616347 ATTTGGTACT
Statistics
Matches: 162, Mismatches: 30, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
81 32 0.20
82 129 0.80
83 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (80 bp):
AAAAGTTACAGAAGATGATAATGCACCACTATTTCACCGTTTTTAAAAAATTGTTTAAATTATGC
ATTGAATGACCTCTG
Found at i:1624231 original size:4 final size:4
Alignment explanation
Indices: 1624222--1624261 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
1624212 CACCAGCGGC
* * *
1624222 GTAT GTAT GTAT GTAT GTGT GTAT GTAT GCAT GCAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1624262 TCAAACAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.23, C:0.05, G:0.28, T:0.45
Consensus pattern (4 bp):
GTAT
Found at i:1632388 original size:31 final size:31
Alignment explanation
Indices: 1632328--1632388 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
1632318 CAAAGATTGG
* * *
1632328 AAAAGTTTAGGGACTAAAAGGATATTTTTTT
1 AAAAGTTTAAGGACCAAAAGGATAATTTTTT
1632359 AAAAGTTTAAGGACCAAAAGTG-TAATTTTT
1 AAAAGTTTAAGGACCAAAAG-GATAATTTTT
1632389 AACAATTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (31 bp):
AAAAGTTTAAGGACCAAAAGGATAATTTTTT
Found at i:1633601 original size:19 final size:20
Alignment explanation
Indices: 1633556--1633603 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1633546 TTTACTATGC
* *
1633556 TTGAAATTTATGTTATAATG
1 TTGAAATTGATGTTAGAATG
1633576 TTGAAATTGATGTTAGAATG
1 TTGAAATTGATGTTAGAATG
1633596 -TGAAATTG
1 TTGAAATTG
1633604 GGTCATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (20 bp):
TTGAAATTGATGTTAGAATG
Found at i:1635135 original size:121 final size:118
Alignment explanation
Indices: 1634922--1635137 Score: 297
Period size: 121 Copynumber: 1.8 Consensus size: 118
1634912 GAGTATGATA
* *
1634922 GTTATCGATCGATTTTGTTAATGCATTATTGCATTTTCCTACCAGTACTTTGTGTACTATGACAC
1 GTTATCGATCAATTTTGTTAATGCATTATTGCATTTTCCTACCAGTACTTTGCGTACTATGACAC
*
1634987 TATGTGTGCAATGATTGTGTTCATAATGAGCACTTGTTACCTTGAATAAGGTG
66 TATGTGTGCAATGATGGTGTTCATAATGAGCACTTGTTACCTTGAATAAGGTG
* * * * ** * *
1635040 GTTATCGATCAATTTTGTTTATGCATTTGTTGTATTTTCGTATTAGTACCTTTGCGTACTTTCGG
1 GTTATCGATCAATTTTGTTAATGCA-TTATTGCATTTTCCTACCAGTA-CTTTGCGTACTAT-GA
*
1635105 CACTATGTGTGCATTGATGGTGTTCATAATGAG
63 CACTATGTGTGCAATGATGGTGTTCATAATGAG
1635138 TTTTTGAATT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
118 23 0.28
119 17 0.20
120 11 0.13
121 32 0.39
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.43
Consensus pattern (118 bp):
GTTATCGATCAATTTTGTTAATGCATTATTGCATTTTCCTACCAGTACTTTGCGTACTATGACAC
TATGTGTGCAATGATGGTGTTCATAATGAGCACTTGTTACCTTGAATAAGGTG
Found at i:1644311 original size:6 final size:5
Alignment explanation
Indices: 1644268--1644307 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
1644258 CCGTCTCGTC
1644268 TCGGG TCGGG TCGGG TCGGG TCGGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG
1644308 TGGTAATACG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 23 0.68
6 11 0.32
ACGTcount: A:0.00, C:0.20, G:0.55, T:0.25
Consensus pattern (5 bp):
TCGGG
Found at i:1644452 original size:21 final size:21
Alignment explanation
Indices: 1644428--1644501 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
1644418 TTTGGAATAA
1644428 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * * **
1644449 ATCGCAA--TGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
1644468 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
1644489 ATCGCAATGCGAA
1 ATCGCAACGCGAA
1644502 TATGTAAATT
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 14 0.35
21 26 0.65
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:1644481 original size:40 final size:42
Alignment explanation
Indices: 1644403--1644497 Score: 167
Period size: 40 Copynumber: 2.3 Consensus size: 42
1644393 TGCGATTTTG
*
1644403 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTC
1644445 GACTATCGCAATGAATTTGG-A-AAATCGCAACGCGAACTTC
1 GACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTC
1644485 GACTATCGCAATG
1 GACTATCGCAATG
1644498 CGAATATGTA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
40 32 0.62
41 1 0.02
42 19 0.37
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (42 bp):
GACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:1644563 original size:20 final size:20
Alignment explanation
Indices: 1644514--1644627 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
1644504 TGTAAATTCA
* *
1644514 GCATTGCGACAGTCAGAATC
1 GCATTGCGATAGTCATAATC
1644534 GCATTGCGATAGTCATAATC
1 GCATTGCGATAGTCATAATC
* *
1644554 GCATTGCGAT-TTACATATTC
1 GCATTGCGATAGT-CATAATC
* *
1644574 GCGTTGCGATAGTCATACTC
1 GCATTGCGATAGTCATAATC
* * *
1644594 GCATTACGAT-TTACATATTC
1 GCATTGCGATAGT-CATAATC
1644614 GCATTGCGATAGTC
1 GCATTGCGATAGTC
1644628 GGAAAATCGC
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.03
20 73 0.95
21 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (20 bp):
GCATTGCGATAGTCATAATC
Found at i:1644581 original size:40 final size:40
Alignment explanation
Indices: 1644532--1644627 Score: 165
Period size: 40 Copynumber: 2.4 Consensus size: 40
1644522 ACAGTCAGAA
*
1644532 TCGCATTGCGATAGTCATAATCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCATAATCGCATTACGATTTACATAT
* *
1644572 TCGCGTTGCGATAGTCATACTCGCATTACGATTTACATAT
1 TCGCATTGCGATAGTCATAATCGCATTACGATTTACATAT
1644612 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
1644628 GGAAAATCGC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (40 bp):
TCGCATTGCGATAGTCATAATCGCATTACGATTTACATAT
Found at i:1645009 original size:51 final size:51
Alignment explanation
Indices: 1644942--1645043 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
1644932 GTATTATATA
* * * *
1644942 ATTTATATACAGTCAATGAGTGTTGACACAAGTTGTTGATATTCATGAATT
1 ATTTATATACAATCAATGAGTGTTGACACAAGTGGTTGAGATTCAAGAATT
* **
1644993 ATTTATATATAATCAATGAGTGTTGGTACAAGTGGTTGAGATTCAAGAATT
1 ATTTATATACAATCAATGAGTGTTGACACAAGTGGTTGAGATTCAAGAATT
1645044 TGAGCTTGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (51 bp):
ATTTATATACAATCAATGAGTGTTGACACAAGTGGTTGAGATTCAAGAATT
Found at i:1646741 original size:3 final size:3
Alignment explanation
Indices: 1646733--1646758 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1646723 GAATTGGGTT
1646733 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
1646759 ATAAAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:1656987 original size:20 final size:20
Alignment explanation
Indices: 1656962--1657004 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1656952 GTAATATAAG
1656962 TTATTTCGTCAAATGTTATA
1 TTATTTCGTCAAATGTTATA
* * *
1656982 TTATTTTGTTAATTGTTATA
1 TTATTTCGTCAAATGTTATA
1657002 TTA
1 TTA
1657005 GCTTTTATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.58
Consensus pattern (20 bp):
TTATTTCGTCAAATGTTATA
Found at i:1662524 original size:15 final size:16
Alignment explanation
Indices: 1662499--1662528 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1662489 TCTTCTATTG
1662499 TTCTTTCTTTTATCTT
1 TTCTTTCTTTTATCTT
1662515 TTCTTT-TTTTATCT
1 TTCTTTCTTTTATCT
1662529 GCCTGGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCTTTCTTTTATCTT
Found at i:1663623 original size:192 final size:192
Alignment explanation
Indices: 1663296--1663680 Score: 770
Period size: 192 Copynumber: 2.0 Consensus size: 192
1663286 TTCGACCCAT
1663296 CAAAGAGAATTACAGCCAGAGAAGCGCTCCTACATCCTTACCTATCAGGGCTATACGATCCGAGG
1 CAAAGAGAATTACAGCCAGAGAAGCGCTCCTACATCCTTACCTATCAGGGCTATACGATCCGAGG
1663361 AGCAATCAACCTGCTCAAGTTCCCATTGATCTCGAGACAGATGAGAACATGAGAGAACCGATGGT
66 AGCAATCAACCTGCTCAAGTTCCCATTGATCTCGAGACAGATGAGAACATGAGAGAACCGATGGT
1663426 TAGGGAGATGATGTGGACTGAAATGCTTCACTGCTACTTAGAGGTTGCATCTTTCAATATGC
131 TAGGGAGATGATGTGGACTGAAATGCTTCACTGCTACTTAGAGGTTGCATCTTTCAATATGC
1663488 CAAAGAGAATTACAGCCAGAGAAGCGCTCCTACATCCTTACCTATCAGGGCTATACGATCCGAGG
1 CAAAGAGAATTACAGCCAGAGAAGCGCTCCTACATCCTTACCTATCAGGGCTATACGATCCGAGG
1663553 AGCAATCAACCTGCTCAAGTTCCCATTGATCTCGAGACAGATGAGAACATGAGAGAACCGATGGT
66 AGCAATCAACCTGCTCAAGTTCCCATTGATCTCGAGACAGATGAGAACATGAGAGAACCGATGGT
1663618 TAGGGAGATGATGTGGACTGAAATGCTTCACTGCTACTTAGAGGTTGCATCTTTCAATATGC
131 TAGGGAGATGATGTGGACTGAAATGCTTCACTGCTACTTAGAGGTTGCATCTTTCAATATGC
1663680 C
1 C
1663681 TAGGTGAACA
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
192 193 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (192 bp):
CAAAGAGAATTACAGCCAGAGAAGCGCTCCTACATCCTTACCTATCAGGGCTATACGATCCGAGG
AGCAATCAACCTGCTCAAGTTCCCATTGATCTCGAGACAGATGAGAACATGAGAGAACCGATGGT
TAGGGAGATGATGTGGACTGAAATGCTTCACTGCTACTTAGAGGTTGCATCTTTCAATATGC
Found at i:1669059 original size:20 final size:18
Alignment explanation
Indices: 1669036--1669082 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
1669026 TAAATCTATG
1669036 ATTATTATAATAA-TTAGTAT
1 ATTATTATAA-AATTTA--AT
*
1669056 ATTATTTTAAAATTTAAT
1 ATTATTATAAAATTTAAT
1669074 ATTATTATA
1 ATTATTATA
1669083 TGCAAAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 10 0.42
19 2 0.08
20 12 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTATTATAAAATTTAAT
Found at i:1669993 original size:60 final size:60
Alignment explanation
Indices: 1669869--1670002 Score: 169
Period size: 60 Copynumber: 2.2 Consensus size: 60
1669859 ATAGTCGAGT
* *
1669869 GATCATTTTGTAACTTTTAATAGTTAAAGGACTTAACAAAACAACATTCTATAGTCAAAT
1 GATCATTTTGTAACTTTTAATAGTTAAAGGACTTAACAAAACAACATTCTATAATCAAAG
* * * * * * **
1669929 GATCATTTTGTAACTTTTAATAGTTAAAGGATTTAATAAAATAATATTTTATAATTAGGG
1 GATCATTTTGTAACTTTTAATAGTTAAAGGACTTAACAAAACAACATTCTATAATCAAAG
1669989 GATCATTTGTGTAA
1 GATCATTT-TGTAA
1670003 TTTATCCTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 58 0.92
61 5 0.08
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (60 bp):
GATCATTTTGTAACTTTTAATAGTTAAAGGACTTAACAAAACAACATTCTATAATCAAAG
Found at i:1673995 original size:31 final size:31
Alignment explanation
Indices: 1673902--1673996 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 31
1673892 TTGAAAGGGA
*
1673902 GTACTAAAATGAAACAAAAACTAAACTTTAT
1 GTACTAAAATGAAACAAAAACTAAACTTTAG
* ** * * * *
1673933 GTA-TGATTTGAAA-AAAATCAAAAAGTCTAG
1 GTACTAAAATGAAACAAAAAC-TAAACTTTAG
1673963 GTACTAAAATGAAACAAAAACTAAACTTTAG
1 GTACTAAAATGAAACAAAAACTAAACTTTAG
1673994 GTA
1 GTA
1673997 TGATTTTGAA
Statistics
Matches: 46, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
29 5 0.11
30 16 0.35
31 20 0.43
32 5 0.11
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.25
Consensus pattern (31 bp):
GTACTAAAATGAAACAAAAACTAAACTTTAG
Found at i:1674007 original size:31 final size:30
Alignment explanation
Indices: 1673911--1674007 Score: 88
Period size: 31 Copynumber: 3.2 Consensus size: 30
1673901 AGTACTAAAA
*
1673911 TGAAACAAAAACTAAACTTTATGTATGATT
1 TGAAACAAAAACTAAACTTTAGGTATGATT
* * * * * **
1673941 TGAAA-AAAATCAAAAAGTCTAGGTACTAAAA
1 TGAAACAAAAAC-TAAACTTTAGGTA-TGATT
1673972 TGAAACAAAAACTAAACTTTAGGTATGATTT
1 TGAAACAAAAACTAAACTTTAGGTATGA-TT
1674003 TGAAA
1 TGAAA
1674008 AAATGAAAAT
Statistics
Matches: 48, Mismatches: 15, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
29 5 0.10
30 16 0.33
31 22 0.46
32 5 0.10
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (30 bp):
TGAAACAAAAACTAAACTTTAGGTATGATT
Found at i:1674011 original size:61 final size:59
Alignment explanation
Indices: 1673902--1674032 Score: 192
Period size: 61 Copynumber: 2.2 Consensus size: 59
1673892 TTGAAAGGGA
*
1673902 GTACTAAAATGAAACAAAAACTAAACTTTATGTATGATTTGAAAAAAATCAAAAAGTCTAG
1 GTACTAAAATGAAACAAAAACTAAACTTTAGGTATGATTTGAAAAAAAT-AAAAA-TCTAG
* *
1673963 GTACTAAAATGAAACAAAAACTAAACTTTAGGTATGATTTTG-AAAAAATGAAAATTTAG
1 GTACTAAAATGAAACAAAAACTAAACTTTAGGTATGA-TTTGAAAAAAATAAAAATCTAG
*
1674022 GTATTAAAATG
1 GTACTAAAATG
1674033 GACCAAAATT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
59 14 0.22
60 4 0.06
61 43 0.66
62 4 0.06
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (59 bp):
GTACTAAAATGAAACAAAAACTAAACTTTAGGTATGATTTGAAAAAAATAAAAATCTAG
Found at i:1682493 original size:122 final size:119
Alignment explanation
Indices: 1682282--1682633 Score: 320
Period size: 121 Copynumber: 2.9 Consensus size: 119
1682272 TAACATTAAA
* * * * *
1682282 TTTAAAAACATTTGAAAGTTTAGGTATTAAAACGAACCAAAACTGATAGTTTAGGTATTAAACGC
1 TTTAAAAA-ATTTGAAAGTTTAGGTACTAAAACGGACCAAAACTGATAATTTATGTACTAAACGC
* * *
1682347 GTTAAAATTTGAAG-GATGGGTACTAAAATAAAATAAAAAACTAAACATTA-GATATGAT
65 GTT-AATTTTTAAGCG-T-GATACTAAAATAAAAT-AAAAACTAAACATTATG-TATGAT
* * *
1682405 TTTAAAAAATTTGAAAGTTTAGGTACT-AAACGGACCAAAAATGATAATTTATGTACTAAGCGCA
1 TTTAAAAAATTTGAAAGTTTAGGTACTAAAACGGACCAAAACTGATAATTTATGTACTAAACGCG
* * * *
1682469 TTAAGTTTTTAACAGCGTGATACTAAAATGAAACAAAAATTAAATATTATGTATGAT
66 TTAA-TTTTT-A-AGCGTGATACTAAAATAAAATAAAAACTAAACATTATGTATGAT
** ** ** * * *
1682526 TTTAGGAAAAAAATGAAAGTTTAAATACTAAAATTGACTAAAACCGGT-ATTT-TGGATACTAAA
1 TTTA--AAAAATTTGAAAGTTTAGGTACTAAAACGGACCAAAACTGATAATTTAT-G-TACTAAA
1682589 CGCGTTAAATTTTTAA-CGTGATACTAAAATAAAATAAAAACTAAA
62 CGCGTT-AATTTTTAAGCGTGATACTAAAATAAAATAAAAACTAAA
1682634 TATTTTACAA
Statistics
Matches: 188, Mismatches: 30, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
120 2 0.01
121 84 0.45
122 35 0.19
123 36 0.19
124 29 0.15
125 2 0.01
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (119 bp):
TTTAAAAAATTTGAAAGTTTAGGTACTAAAACGGACCAAAACTGATAATTTATGTACTAAACGCG
TTAATTTTTAAGCGTGATACTAAAATAAAATAAAAACTAAACATTATGTATGAT
Found at i:1693405 original size:31 final size:30
Alignment explanation
Indices: 1693360--1693434 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 30
1693350 TATTCCATTA
* * *
1693360 ATCACTAAACTTTAATTTATATACT-AATTT
1 ATCATTAAATTTTAATTTACATA-TGAATTT
*
1693390 AGTCATTAAATTTTAATTTACATATGATTTT
1 A-TCATTAAATTTTAATTTACATATGAATTT
*
1693421 ATTATTAAATTTTA
1 ATCATTAAATTTTA
1693435 CAACACTTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
30 14 0.37
31 24 0.63
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.51
Consensus pattern (30 bp):
ATCATTAAATTTTAATTTACATATGAATTT
Found at i:1696868 original size:14 final size:14
Alignment explanation
Indices: 1696830--1696869 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1696820 AATGGGGAGT
* *
1696830 AATCCCTGCAAATA
1 AATCCCTGCATACA
1696844 AATCCCTGCATACA
1 AATCCCTGCATACA
*
1696858 AATCTCTGCATA
1 AATCCCTGCATA
1696870 TAGACATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.30, G:0.07, T:0.25
Consensus pattern (14 bp):
AATCCCTGCATACA
Found at i:1700775 original size:22 final size:22
Alignment explanation
Indices: 1700750--1700801 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
1700740 AACTGGTTAA
*
1700750 AAATTCAATTTAAATT-CATATT
1 AAATT-AATTTAAATTAAATATT
*
1700772 AAATTTATTTAAATTAAATATT
1 AAATTAATTTAAATTAAATATT
*
1700794 AACTTAAT
1 AAATTAAT
1700802 ATCGATCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATTAATTTAAATTAAATATT
Found at i:1714470 original size:15 final size:15
Alignment explanation
Indices: 1714450--1714486 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
1714440 TGAGACATTA
*
1714450 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
1714465 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
1714480 CCCGCCC
1 CCCGCCC
1714487 AGCTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.70, G:0.16, T:0.05
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:1725994 original size:34 final size:34
Alignment explanation
Indices: 1725951--1726018 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
1725941 TAAGGCGTGA
1725951 CTATTAGAACTTTATAGTATGATTAGTCTATGAT
1 CTATTAGAACTTTATAGTATGATTAGTCTATGAT
1725985 CTATTAGAACTTTATAGTATGATTAGTCTATGAT
1 CTATTAGAACTTTATAGTATGATTAGTCTATGAT
1726019 AGATATCATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (34 bp):
CTATTAGAACTTTATAGTATGATTAGTCTATGAT
Done.