Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 42 of 199
Found at i:16722160 original size:24 final size:24
Alignment explanation
Indices: 16722128--16722174 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
16722118 TTAGCAAATG
* *
16722128 TTATTATTACGATAATTATATATA
1 TTATAATTACGATAACTATATATA
*
16722152 TTATAATTATGATAACTATATAT
1 TTATAATTACGATAACTATATAT
16722175 TTTTACATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
TTATAATTACGATAACTATATATA
Found at i:16724382 original size:46 final size:45
Alignment explanation
Indices: 16724308--16724446 Score: 161
Period size: 46 Copynumber: 3.0 Consensus size: 45
16724298 ACAATGCTAT
* * *
16724308 AACTCAGTATGGTTTTCTTCACTAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTT-ACTGAAATACCATACCTACGTTCCAC
* * *
16724354 AACTTAGTATGGTTTTCGTTACTGAAATACCATACTTACGTTCCAT
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTACGTTCCAC
* * * *
16724400 AACTCAGTATGATTTTCTTTACTGAATTACCATACCTGCATTCCAC
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTACGTTCCAC
16724446 A
1 A
16724447 CTTTGCCATG
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 76 0.97
47 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.37
Consensus pattern (45 bp):
AACTCAGTATGGTTTTCTTACTGAAATACCATACCTACGTTCCAC
Found at i:16731046 original size:31 final size:33
Alignment explanation
Indices: 16730973--16731046 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
16730963 TCCTAATAAT
* * *
16730973 AACAACAAAATAGTAGCAATATAATAGTGAAAC
1 AACAACAAAACAGTAACAATATAATAGTGAAAA
*
16731006 AACACCAAAACAGTAACAA-A-AATAGT-AAAA
1 AACAACAAAACAGTAACAATATAATAGTGAAAA
16731036 AAGCAACAAAA
1 AA-CAACAAAA
16731047 AGCAATAGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 5 0.14
31 13 0.37
32 1 0.03
33 16 0.46
ACGTcount: A:0.64, C:0.15, G:0.09, T:0.12
Consensus pattern (33 bp):
AACAACAAAACAGTAACAATATAATAGTGAAAA
Found at i:16736089 original size:18 final size:18
Alignment explanation
Indices: 16736061--16736108 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 18
16736051 ATTTTTAAGA
16736061 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
16736078 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
16736094 A-TTTAATAAAATTAT
1 ATTTTAATTAAATTAT
16736109 GTTTAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 9 0.33
16 5 0.19
17 7 0.26
18 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:16736100 original size:15 final size:15
Alignment explanation
Indices: 16736074--16736114 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
16736064 TTATTAAATT
16736074 ATATATTTTAATTAAA
1 ATATATTTTAA-TAAA
16736090 ATATA-TTTAATAAA
1 ATATATTTTAATAAA
16736104 AT-TATGTTTAA
1 ATATAT-TTTAA
16736115 ATATGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.09
14 6 0.26
15 10 0.43
16 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATATATTTTAATAAA
Found at i:16736348 original size:16 final size:16
Alignment explanation
Indices: 16736327--16736365 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
16736317 TTGATTTGCT
*
16736327 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
*
16736343 ATTACACATCTATTCC
1 ATTACACAGCTATTCC
16736359 ATTACAC
1 ATTACAC
16736366 CTCTAATCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.31, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:16736370 original size:16 final size:16
Alignment explanation
Indices: 16736340--16736396 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
16736330 ACACAGCTTT
* * *
16736340 TCCATTACACATCTAT
1 TCCAATACACCTCTAA
*
16736356 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
16736372 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
16736388 TCCAATACA
1 TCCAATACA
16736397 GCGAACCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:16744475 original size:10 final size:10
Alignment explanation
Indices: 16744460--16744487 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
16744450 CCTGTTGATG
16744460 ACCAGTCTGC
1 ACCAGTCTGC
16744470 ACCAGTCTGC
1 ACCAGTCTGC
16744480 ACCAGTCT
1 ACCAGTCT
16744488 ACATTACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.39, G:0.18, T:0.21
Consensus pattern (10 bp):
ACCAGTCTGC
Found at i:16753466 original size:16 final size:18
Alignment explanation
Indices: 16753427--16753460 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16753417 TAAGTTTATA
16753427 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
16753444 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
16753461 AATTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:16758745 original size:46 final size:46
Alignment explanation
Indices: 16758675--16759011 Score: 473
Period size: 46 Copynumber: 7.6 Consensus size: 46
16758665 TACGTATGAT
* *
16758675 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTTGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
16758719 CACTGATCACTTTGTCACTTGATCAGATAAATGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
16758765 CACTTATCATTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
16758811 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
16758857 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
16758903 CACTTATCATTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
16758939 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
16758985 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
16759012 AGTACTCAAA
Statistics
Matches: 264, Mismatches: 17, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
36 28 0.11
38 2 0.01
39 1 0.00
40 2 0.01
41 2 0.01
42 2 0.01
43 1 0.00
44 11 0.04
45 5 0.02
46 210 0.80
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:16758943 original size:36 final size:36
Alignment explanation
Indices: 16758903--16758975 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
16758893 CTAAAGCTAC
* *
16758903 CACTTATCATTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
16758939 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
16758975 C
1 C
16758976 TAAAGCTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:16759003 original size:82 final size:82
Alignment explanation
Indices: 16758857--16759011 Score: 292
Period size: 82 Copynumber: 1.9 Consensus size: 82
16758847 CTAAGGCTAA
* *
16758857 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
16758922 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
16758939 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
16759004 TGATCAGA
66 TGATCAGA
16759012 AGTACTCAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
TGATCAGATAAGTGTAG
Found at i:16771281 original size:41 final size:41
Alignment explanation
Indices: 16771224--16771364 Score: 237
Period size: 41 Copynumber: 3.4 Consensus size: 41
16771214 AATTGAAATT
*
16771224 TTCAGACTTAAAGTCTAGCAGGTTTAATGCCGGTGATATAA
1 TTCAGACTTAAAGTCTAGCAGGTTTAAGGCCGGTGATATAA
*
16771265 TTCAGACTTAAAGTCTAGCAGGCTTAAGGCCGGTGATATAA
1 TTCAGACTTAAAGTCTAGCAGGTTTAAGGCCGGTGATATAA
*
16771306 TTCAGACTTAAAGTCTAGCAGGTTTAAGGCCGGTGAAATAA
1 TTCAGACTTAAAGTCTAGCAGGTTTAAGGCCGGTGATATAA
* *
16771347 TTCGGACTTTAAGTCTAG
1 TTCAGACTTAAAGTCTAG
16771365 TAGGCTAATT
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (41 bp):
TTCAGACTTAAAGTCTAGCAGGTTTAAGGCCGGTGATATAA
Found at i:16777659 original size:15 final size:15
Alignment explanation
Indices: 16777639--16777669 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16777629 CAGCTAGTGA
16777639 ACCTCGAATCCATTC
1 ACCTCGAATCCATTC
16777654 ACCTCGAATCCATTC
1 ACCTCGAATCCATTC
16777669 A
1 A
16777670 ACAGACGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.39, G:0.06, T:0.26
Consensus pattern (15 bp):
ACCTCGAATCCATTC
Found at i:16786059 original size:18 final size:17
Alignment explanation
Indices: 16786026--16786065 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
16786016 GGTTGAACTG
*
16786026 AAATTTTTAAAATTTTT
1 AAATTTGTAAAATTTTT
16786043 AAATTTGTAATAATTTTT
1 AAATTTGTAA-AATTTTT
*
16786061 TAATT
1 AAATT
16786066 AGATTGATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
AAATTTGTAAAATTTTT
Found at i:16790349 original size:13 final size:13
Alignment explanation
Indices: 16790333--16790372 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
16790323 TAATTTTTGA
16790333 TTTATTATTTTAT
1 TTTATTATTTTAT
16790346 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
16790359 TTTAATTATTTTAT
1 TTT-ATTATTTTAT
16790373 CTGACTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:16792259 original size:17 final size:17
Alignment explanation
Indices: 16792239--16792271 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16792229 GATTTATTAT
*
16792239 TTTATTTTAGTTATTTA
1 TTTATTTTAATTATTTA
16792256 TTTATTTTAATTATTT
1 TTTATTTTAATTATTT
16792272 TATCTGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTATTTTAATTATTTA
Found at i:16793784 original size:27 final size:27
Alignment explanation
Indices: 16793754--16793816 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
16793744 TATCAGGTAA
*
16793754 GCGCCATTGAAGGTGCCTCATAGAGAG
1 GCGCCAATGAAGGTGCCTCATAGAGAG
16793781 GCGCCAATGAAGGTGCCTCATAGAGAG
1 GCGCCAATGAAGGTGCCTCATAGAGAG
16793808 GCGCCAATG
1 GCGCCAATG
16793817 GTGGCCTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.27, C:0.24, G:0.33, T:0.16
Consensus pattern (27 bp):
GCGCCAATGAAGGTGCCTCATAGAGAG
Found at i:16793960 original size:14 final size:13
Alignment explanation
Indices: 16793943--16793982 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
16793933 GAAAAAAAAA
*
16793943 AAGAGAGAAAGGAG
1 AAGA-AGAAAGAAG
16793957 AAGAAGAGAAGAAG
1 AAGAAGA-AAGAAG
16793971 AAGAAGAAAGAA
1 AAGAAGAAAGAA
16793983 AGAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAG
Found at i:16794074 original size:12 final size:12
Alignment explanation
Indices: 16794057--16794082 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16794047 TTTGTGAATT
16794057 TTTTAGAAGATA
1 TTTTAGAAGATA
16794069 TTTTAGAAGATA
1 TTTTAGAAGATA
16794081 TT
1 TT
16794083 GTGAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTTAGAAGATA
Found at i:16794174 original size:19 final size:19
Alignment explanation
Indices: 16794150--16794438 Score: 105
Period size: 19 Copynumber: 15.2 Consensus size: 19
16794140 TTTGGATTAG
*
16794150 AATTTTGTATGAATATTCT
1 AATTTTGTATGAATATTGT
16794169 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
16794191 AATTATT-TATGAATATTGT
1 AATT-TTGTATGAATATTGT
*
16794210 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * * *
16794233 -ATTTACAGTTTTGGAT-TAGT
1 AATTT--TG-TATGAATATTGT
16794253 -ATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
16794271 AATTTTGTATAAATATTGT
1 AATTTTGTATGAATATTGT
*
16794290 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
16794304 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
* *
16794320 AATTTTATATGAATATTGC
1 AATTTTGTATGAATATTGT
* *
16794339 AATTTT-TTTG--TAATG-
1 AATTTTGTATGAATATTGT
*
16794354 AATATTG--T-AATATTGT
1 AATTTTGTATGAATATTGT
16794370 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
* *
16794389 AATGTCGGGATATATTGTAATATTGT
1 AAT-T----TTGTA-TG-AATATTGT
16794415 AATTTTTGTATGAATATTGT
1 AA-TTTTGTATGAATATTGT
16794435 AATT
1 AATT
16794439 ATTTTATAAT
Statistics
Matches: 204, Mismatches: 28, Indels: 76
0.66 0.09 0.25
Matches are distributed among these distances:
13 1 0.00
14 8 0.04
15 12 0.06
16 17 0.08
17 5 0.02
18 11 0.05
19 73 0.36
20 24 0.12
21 3 0.01
22 25 0.12
23 4 0.02
24 6 0.03
25 3 0.01
26 11 0.05
27 1 0.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:16794179 original size:22 final size:22
Alignment explanation
Indices: 16794152--16794218 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
16794142 TGGATTAGAA
*
16794152 TTTTGTATGAATATTCTAATTT
1 TTTTGTATGAATATTGTAATTT
16794174 TTTTGTATGAATATTGTAA--T
1 TTTTGTATGAATATTGTAATTT
* *
16794194 TATT-TATGAATATTGTAATTA
1 TTTTGTATGAATATTGTAATTT
16794215 TTTT
1 TTTT
16794219 ATAATTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
19 14 0.36
20 4 0.10
21 3 0.08
22 18 0.46
ACGTcount: A:0.30, C:0.01, G:0.10, T:0.58
Consensus pattern (22 bp):
TTTTGTATGAATATTGTAATTT
Found at i:16794367 original size:50 final size:49
Alignment explanation
Indices: 16794263--16794443 Score: 217
Period size: 50 Copynumber: 3.7 Consensus size: 49
16794253 ATTTTGTATG
* *
16794263 AATATTGTAATTTTGTATAAATATTGTAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
16794312 AATATTATAATTTTATATGAATATTGCAATTTTTTTGTAATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGT-ATGAATATTGT
* * ** *
16794362 AATATTGTAATTTTGTATGAATATTGTAA--TGTCGGGAT--ATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
16794407 AATATTGTAATTTTTGTATGAATATTGTAATTATTTT
1 AATATTGTAA-TTTTGTATGAATATTGCAATTTTTTT
16794444 ATAATTAATT
Statistics
Matches: 113, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
45 17 0.15
46 19 0.17
47 2 0.02
48 4 0.04
49 34 0.30
50 37 0.33
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.52
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:16794463 original size:99 final size:97
Alignment explanation
Indices: 16794263--16794456 Score: 241
Period size: 96 Copynumber: 2.0 Consensus size: 97
16794253 ATTTTGTATG
* ** *
16794263 AATATTGTAATTTTGTATAAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAATTTTAT
1 AATATTGTAATTTTGTATAAATATTGTAA-TTGTCGGGAT-AATATTGTAATATTATAATTTTAT
* *
16794328 ATGAATATTGCAATTTTTTTGTAATGAATATTGT
64 ATGAATATTGCAATTATTTTATAATGAATATTGT
* * *
16794362 AATATTGTAATTTTGTATGAATATTGTAA-TGTCGGGAT-ATATTGTAATATTGTAATTTTTGTA
1 AATATTGTAATTTTGTATAAATATTGTAATTGTCGGGATAATATTGTAATATTATAA-TTTTATA
* *
16794425 TGAATATTGTAATTATTTTATAATTAAT-TTGT
65 TGAATATTGCAATTATTTTATAATGAATATTGT
16794457 TAGTAATTTA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
95 20 0.24
96 30 0.36
97 5 0.06
99 28 0.34
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.53
Consensus pattern (97 bp):
AATATTGTAATTTTGTATAAATATTGTAATTGTCGGGATAATATTGTAATATTATAATTTTATAT
GAATATTGCAATTATTTTATAATGAATATTGT
Found at i:16794513 original size:60 final size:60
Alignment explanation
Indices: 16794431--16794552 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
16794421 TGTATGAATA
* * * * *
16794431 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
16794491 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
16794551 TT
1 TT
16794553 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 6 0.11
60 49 0.89
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:16794640 original size:38 final size:38
Alignment explanation
Indices: 16794586--16794668 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
16794576 CATATAAAGT
16794586 TTATAAAAAAAATTAAAAATTATTTTATTAAAAGTTTAA
1 TTAT-AAAAAAATTAAAAATTATTTTATTAAAAGTTTAA
*
16794625 TTATAAAAAAGTTAAAAATTATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATTATTTTATTAAAAGTTTAA
16794663 TTATAA
1 TTATAA
16794669 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 39 0.91
39 4 0.09
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATTATTTTATTAAAAGTTTAA
Found at i:16794731 original size:16 final size:15
Alignment explanation
Indices: 16794710--16794746 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
16794700 CTCATTTAAT
16794710 TTTTATATAATGTAA
1 TTTTATATAATGTAA
*
16794725 CTTTTATATAATTTAA
1 -TTTTATATAATGTAA
16794741 TTTTAT
1 TTTTAT
16794747 TTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTTATATAATGTAA
Found at i:16795132 original size:37 final size:38
Alignment explanation
Indices: 16795090--16795170 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 38
16795080 AAAAAGTCAG
16795090 TTATAATTAAACTTTTAATAAAATGATTTTTAA-TTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAACTTTT
16795127 TTATAATTAAACTTTTAATAAAATGATTTTTAACTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAACTTTT
16795165 TTATAA
1 TTATAA
16795171 ACATTATATT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 33 0.77
38 10 0.23
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAACTTTT
Found at i:16795159 original size:23 final size:25
Alignment explanation
Indices: 16795133--16795187 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
16795123 TTTTTTATAA
16795133 TTAAACTTTTAATAAA-ATGAT-TT
1 TTAAACTTTTAATAAACATGATATT
* *
16795156 TT-AACTTTTTTATAAACATTATATT
1 TTAAAC-TTTTAATAAACATGATATT
16795181 TTAAACT
1 TTAAACT
16795188 CACCAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 3 0.12
23 11 0.42
24 4 0.15
25 5 0.19
26 3 0.12
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (25 bp):
TTAAACTTTTAATAAACATGATATT
Found at i:16795280 original size:60 final size:60
Alignment explanation
Indices: 16795204--16795325 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
16795194 ATACTAAACT
* * * * *
16795204 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
*
16795264 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
16795324 AA
1 AA
16795326 TATTCATACA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 4 0.07
60 51 0.93
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:16795352 original size:8 final size:8
Alignment explanation
Indices: 16795339--16795429 Score: 65
Period size: 8 Copynumber: 10.4 Consensus size: 8
16795329 TCATACAAAA
16795339 ATTACAAT
1 ATTACAAT
16795347 ATTACAAT
1 ATTACAAT
* * *
16795355 ATATCCCGAC
1 AT-T-ACAAT
16795365 ATTACAAT
1 ATTACAAT
*
16795373 ATTCATACAAA
1 A-T--TACAAT
16795384 ATTACAAT
1 ATTACAAT
16795392 ATTACAAT
1 ATTACAAT
*
16795400 ATTCATACAAA
1 A-T--TACAAT
16795411 ATTACAAT
1 ATTACAAT
16795419 ATTACAAT
1 ATTACAAT
16795427 ATT
1 ATT
16795430 CATTACAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
8 43 0.66
9 4 0.06
10 6 0.09
11 12 0.18
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.34
Consensus pattern (8 bp):
ATTACAAT
Found at i:16795389 original size:19 final size:19
Alignment explanation
Indices: 16795386--16795654 Score: 126
Period size: 19 Copynumber: 14.5 Consensus size: 19
16795376 CATACAAAAT
*
16795386 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
16795405 TACAAAATTACAATA-T--
1 TACAAAATTACAATATTCA
* *
16795421 TACAATATT-C-AT-TACA
1 TACAAAATTACAATATTCA
* *
16795437 -AAAAAATTGCAATATTCA
1 TACAAAATTACAATATTCA
* * *
16795455 CATAAAATTATAATA-T--
1 TACAAAATTACAATATTCA
*
16795471 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
*
16795486 -AAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
16795504 TAAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
16795523 TACAAAAAATTACAATATTCA
1 TAC--AAAATTACAATATTCA
* *
16795544 TACAAAA-TACTA-ATCCAA
1 TACAAAATTACAATATTC-A
*
16795562 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
16795585 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
* *
16795605 TAAAAAATTACAATATTAA
1 TACAAAATTACAATATTCA
*
16795624 TACAAAAAAATTAGAATATTCA
1 TAC---AAAATTACAATATTCA
16795646 TACAAAATT
1 TACAAAATT
16795655 CTAATCCAAA
Statistics
Matches: 193, Mismatches: 27, Indels: 60
0.69 0.10 0.21
Matches are distributed among these distances:
14 11 0.06
15 8 0.04
16 18 0.09
17 5 0.03
18 14 0.07
19 74 0.38
20 13 0.07
21 21 0.11
22 22 0.11
23 5 0.03
25 2 0.01
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:16795401 original size:27 final size:27
Alignment explanation
Indices: 16795365--16795541 Score: 188
Period size: 27 Copynumber: 7.1 Consensus size: 27
16795355 ATATCCCGAC
16795365 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
16795392 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
16795419 ATTACAATATTCATTAC-AAA--A-AA-
1 ATTACAATATTCA-TACAAAATTACAAT
* * * *
16795442 ATTGCAATATTCACATAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
16795469 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
*
16795491 ATTACAATATTCATAAAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
16795518 ATT-C-ATA--CA-A-AAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
16795539 ATT
1 ATT
16795542 CATACAAAAT
Statistics
Matches: 132, Mismatches: 7, Indels: 28
0.79 0.04 0.17
Matches are distributed among these distances:
21 14 0.11
22 17 0.13
23 22 0.17
24 3 0.02
25 6 0.05
26 8 0.06
27 59 0.45
28 3 0.02
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:16795526 original size:41 final size:41
Alignment explanation
Indices: 16795469--16795652 Score: 154
Period size: 41 Copynumber: 4.5 Consensus size: 41
16795459 AAATTATAAT
16795469 ATTACAATATTCATACAAAAAAATTACAATATTCATAAAAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCATAAAAA
*
16795510 ATTACAATATTCATAC-AAAAAATTACAATATTCATACAAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCATAAAAA
* * *
16795550 A-TACTA-ATCCA-A-AACTATAAA-TACAAATTTAATT-ATAAAATA
1 ATTACAATATTCATACAA--AAAAATTAC-AA--T-ATTCATAAAA-A
*
16795592 ATTACAATATTCAT---AAAAAATTACAATATTAATACAAAAAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCAT---AAAAA
*
16795633 ATTAGAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
16795653 TTCTAATCCA
Statistics
Matches: 115, Mismatches: 9, Indels: 35
0.72 0.06 0.22
Matches are distributed among these distances:
37 2 0.02
38 10 0.09
39 13 0.11
40 24 0.21
41 42 0.37
42 12 0.10
43 5 0.04
44 7 0.06
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.30
Consensus pattern (41 bp):
ATTACAATATTCATACAAAAAAATTACAATATTCATAAAAA
Found at i:16795608 original size:101 final size:101
Alignment explanation
Indices: 16795485--16795671 Score: 322
Period size: 101 Copynumber: 1.9 Consensus size: 101
16795475 ATATTCATAC
*
16795485 AAAAAAATTACAATATTCATAAAAAATTACAATATTCATAC-AAAAAATTACAATATTCATACAA
1 AAAAAAATTACAATATTCATAAAAAATTACAATATTAATACAAAAAAATTACAATATTCATACAA
16795549 AATACTAATCCAAAACTATAAATACAAATTTAATTAT
66 AATACTAATCC-AAACTATAAATACAAATTTAATTAT
* *
16795586 AAAATAATTACAATATTCATAAAAAATTACAATATTAATACAAAAAAATTAGAATATTCATACAA
1 AAAAAAATTACAATATTCATAAAAAATTACAATATTAATACAAAAAAATTACAATATTCATACAA
*
16795651 AATTCTAATCCAAACTATAAA
66 AATACTAATCCAAACTATAAA
16795672 CACTAAATAT
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
101 49 0.60
102 32 0.40
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.29
Consensus pattern (101 bp):
AAAAAAATTACAATATTCATAAAAAATTACAATATTAATACAAAAAAATTACAATATTCATACAA
AATACTAATCCAAACTATAAATACAAATTTAATTAT
Found at i:16795631 original size:22 final size:22
Alignment explanation
Indices: 16795586--16795652 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
16795576 ATTTAATTAT
*
16795586 AAAATAATTACAATATTCAT--
1 AAAAAAATTACAATATTCATAC
*
16795606 -AAAAAATTACAATATTAATAC
1 AAAAAAATTACAATATTCATAC
*
16795627 AAAAAAATTAGAATATTCATAC
1 AAAAAAATTACAATATTCATAC
16795649 AAAA
1 AAAA
16795653 TTCTAATCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.43
22 23 0.57
ACGTcount: A:0.61, C:0.09, G:0.01, T:0.28
Consensus pattern (22 bp):
AAAAAAATTACAATATTCATAC
Found at i:16795738 original size:12 final size:12
Alignment explanation
Indices: 16795721--16795746 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16795711 AAAAATTCAC
16795721 AATATCTTCTAA
1 AATATCTTCTAA
16795733 AATATCTTCTAA
1 AATATCTTCTAA
16795745 AA
1 AA
16795747 AATTCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:16813251 original size:57 final size:59
Alignment explanation
Indices: 16813137--16813284 Score: 167
Period size: 57 Copynumber: 2.5 Consensus size: 59
16813127 AATTGACAGT
* *
16813137 AAAAAGGATCTAACCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCGAAAAATATGTG-G
*
16813200 AAAAAGATCTAGCCCGGACGGGTGAT-C-T-TGATATATCCCTCCCGAAAAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAAAATATGTGG
* * * *
16813256 AAAATGGATTTAGTCCGGACGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
16813285 GAATTAGGGT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
56 5 0.07
57 43 0.57
58 1 0.01
59 1 0.01
61 1 0.01
62 20 0.26
63 5 0.07
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAAAATATGTGG
Found at i:16814383 original size:16 final size:17
Alignment explanation
Indices: 16814362--16814395 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16814352 ACATAATTAT
*
16814362 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
16814378 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
16814395 T
1 T
16814396 TAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:16815325 original size:42 final size:42
Alignment explanation
Indices: 16815265--16815364 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
16815255 CTATATGAAC
* *
16815265 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACG
* *
16815307 GGCACTAAGTGTGTGAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACG
16815349 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
16815365 TACCAAGAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACG
Found at i:16838746 original size:2 final size:2
Alignment explanation
Indices: 16838739--16838765 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16838729 ACTGTGTAAA
16838739 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
16838766 GCTCGCTCGT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:16843227 original size:64 final size:64
Alignment explanation
Indices: 16843145--16843265 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 64
16843135 GCGAGCATCC
* * * * * * *
16843145 TGATCGGTATTGATCCTGCATGTGTTGCGAACATACCGTAGCTCTTTGTGAGTGTCCTATTATA
1 TGATCGGTATGGATCCTGCATATATTGAGAACATACCGCAGCTCTTTATGAGCGTCCTATTATA
* *
16843209 TGATCGGTGTGGATCCTGCATATATTGAGGACATACCGCAGCTCTTTATGAGCGTCC
1 TGATCGGTATGGATCCTGCATATATTGAGAACATACCGCAGCTCTTTATGAGCGTCC
16843266 CGATATATGA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (64 bp):
TGATCGGTATGGATCCTGCATATATTGAGAACATACCGCAGCTCTTTATGAGCGTCCTATTATA
Found at i:16844548 original size:29 final size:29
Alignment explanation
Indices: 16844513--16844583 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
16844503 ACTTCAAATG
16844513 CCCACACGGCTTGGGACATGGGCATGTCA
1 CCCACACGGCTTGGGACATGGGCATGTCA
16844542 CCCACACGGCTTGGGACATGGGCATGTCA
1 CCCACACGGCTTGGGACATGGGCATGTCA
*
16844571 CTCACACGGCTTG
1 CCCACACGGCTTG
16844584 ACCACACGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.18
Consensus pattern (29 bp):
CCCACACGGCTTGGGACATGGGCATGTCA
Found at i:16850279 original size:9 final size:9
Alignment explanation
Indices: 16850265--16850295 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16850255 GTTAAACGAA
16850265 TCGAGTTAT
1 TCGAGTTAT
*
16850274 TCGAGTTAA
1 TCGAGTTAT
16850283 TCGAGTTAT
1 TCGAGTTAT
16850292 TCGA
1 TCGA
16850296 ATAAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:16850369 original size:18 final size:18
Alignment explanation
Indices: 16850348--16850384 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
16850338 TGAGTTTTCG
16850348 AATTCGAATAACTTGAAT
1 AATTCGAATAACTTGAAT
*
16850366 AATTCGAATAATTTGAAT
1 AATTCGAATAACTTGAAT
16850384 A
1 A
16850385 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (18 bp):
AATTCGAATAACTTGAAT
Found at i:16850632 original size:30 final size:31
Alignment explanation
Indices: 16850598--16850657 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
16850588 AAACCTTTTA
*
16850598 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
16850628 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
16850658 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:16851316 original size:5 final size:5
Alignment explanation
Indices: 16851306--16851331 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
16851296 GAACAAATAT
16851306 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
16851332 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:16854873 original size:21 final size:21
Alignment explanation
Indices: 16854847--16854887 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16854837 ATCTGCTCAA
* *
16854847 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
16854868 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
16854888 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:16863316 original size:20 final size:21
Alignment explanation
Indices: 16863278--16863317 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
16863268 CCCATTTTCC
*
16863278 ATTCTTTTTTACGTTTAAATTT
1 ATTCTTTTATACG-TTAAATTT
16863300 ATTCTTTTATACG-TAAAT
1 ATTCTTTTATACGTTAAAT
16863318 CTAGAGACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTCTTTTATACGTTAAATTT
Found at i:16867838 original size:64 final size:64
Alignment explanation
Indices: 16867737--16867867 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
16867727 AATTTTCAAC
*
16867737 CCTTAGTAAACTATCAGCTGTGTGGATACTTGAAGTGAATTAAGATACTGAATATTTTATGCAT
1 CCTTAGTAAACTATCAGCTGTGTGGATACTTGAAGTGAATTAAGATACTGAACATTTTATGCAT
16867801 CCTTAGTAAACTATCAGCTGTGTGGATACTTGAAGTGAATTAAGATACTGAACATTTTATGCAT
1 CCTTAGTAAACTATCAGCTGTGTGGATACTTGAAGTGAATTAAGATACTGAACATTTTATGCAT
16867865 CCT
1 CCT
16867868 AGTTCACTAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (64 bp):
CCTTAGTAAACTATCAGCTGTGTGGATACTTGAAGTGAATTAAGATACTGAACATTTTATGCAT
Found at i:16871665 original size:45 final size:45
Alignment explanation
Indices: 16871616--16871709 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
16871606 AGTTTTTATT
16871616 TCAAACAAAACATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
1 TCAAACAAAACATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
* * *
16871661 TCAAACAAAAGATTACTGGCTTTAGATTCTAATAAAAATTAAAGC
1 TCAAACAAAACATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
16871706 TCAA
1 TCAA
16871710 TAACCTATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.28
Consensus pattern (45 bp):
TCAAACAAAACATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
Found at i:16881722 original size:13 final size:13
Alignment explanation
Indices: 16881704--16881735 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16881694 TTTCCAGCAA
16881704 TTATGAATTTATT
1 TTATGAATTTATT
16881717 TTATGAATTTATT
1 TTATGAATTTATT
*
16881730 TGATGA
1 TTATGA
16881736 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:16881943 original size:50 final size:50
Alignment explanation
Indices: 16881830--16882071 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
16881820 ATTTGGGTAA
* * * *
16881830 AGAGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
16881886 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
16881936 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
16881986 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
16882036 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
16882072 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:16882018 original size:100 final size:103
Alignment explanation
Indices: 16881830--16882079 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
16881820 ATTTGGGTAA
*
16881830 AGAGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
16881895 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
16881936 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
16881998 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
16882036 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
16882080 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 39 0.30
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:16886719 original size:95 final size:95
Alignment explanation
Indices: 16886597--16886786 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 95
16886587 AGCGAAATAG
16886597 GGGAAACTTTAAAGAATAAACTGTACTATTTGGCTAAACCAAAAATTCTGAAAATTTTATGATAT
1 GGGAAACTTTAAAGAATAAACTGTACTATTTGGCTAAACCAAAAATTCTGAAAATTTTATGATAT
16886662 GAAGATATGTGAGTCTAGTTTCAGGAAAAA
66 GAAGATATGTGAGTCTAGTTTCAGGAAAAA
*
16886692 GGGAAACTTTAAAGAATAAACTGTACTATTTGGCTGAACCAAAAATTCTGAAAATTTTATGATAT
1 GGGAAACTTTAAAGAATAAACTGTACTATTTGGCTAAACCAAAAATTCTGAAAATTTTATGATAT
16886757 GAAGATATGTGAGTCTAGTTTCAGGAAAAA
66 GAAGATATGTGAGTCTAGTTTCAGGAAAAA
16886787 TTAACGGATC
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (95 bp):
GGGAAACTTTAAAGAATAAACTGTACTATTTGGCTAAACCAAAAATTCTGAAAATTTTATGATAT
GAAGATATGTGAGTCTAGTTTCAGGAAAAA
Found at i:16887316 original size:52 final size:48
Alignment explanation
Indices: 16887297--16887597 Score: 366
Period size: 46 Copynumber: 6.3 Consensus size: 48
16887287 TGACAAGTGG
* * *
16887297 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
16887343 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
* *
16887391 GTGGAAAGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGA
1 ----AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-A---A
* * *
16887447 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
* *
16887493 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
* *
16887539 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
16887585 AAAGTGATAAGTG
1 AAAGTGATAAGTG
16887598 GCTACACTTA
Statistics
Matches: 234, Mismatches: 11, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
46 145 0.62
52 87 0.37
53 1 0.00
56 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
Found at i:16887351 original size:98 final size:98
Alignment explanation
Indices: 16887231--16887586 Score: 499
Period size: 98 Copynumber: 3.6 Consensus size: 98
16887221 TTTGAGTACT
* * *
16887231 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
16887296 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
16887329 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
16887394 GAAAGTGATAAGTGATAGCTTCGGTTACACTTA
66 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
16887427 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
**
16887492 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTA
60 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
16887525 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
16887587 AGTGATAAGT
Statistics
Matches: 235, Mismatches: 15, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
92 43 0.18
98 149 0.63
104 43 0.18
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:16887593 original size:92 final size:83
Alignment explanation
Indices: 16887515--16887708 Score: 257
Period size: 74 Copynumber: 2.5 Consensus size: 83
16887505 GATAGCTTTA
* *
16887515 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAA
16887580 GAGACAAAGTGATAAGTG
66 GAGACAAAGTGATAAGTG
16887598 GCTACACTTATCTGATCAAGAAACAAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAA
* *
16887654 GAAATAAAGTGATAAGTG
66 GAGACAAAGTGATAAGTG
**
16887672 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTGAT
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGAT
16887709 CATACGTAAG
Statistics
Matches: 103, Mismatches: 5, Indels: 14
0.84 0.04 0.11
Matches are distributed among these distances:
72 9 0.09
73 4 0.04
74 53 0.51
75 1 0.01
79 1 0.01
80 1 0.01
81 1 0.01
83 33 0.32
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (83 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAA
GAGACAAAGTGATAAGTG
Found at i:16887605 original size:37 final size:37
Alignment explanation
Indices: 16887561--16887706 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
16887551 GATAGCTTTA
*
16887561 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
16887598 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
16887635 GCTACACTTATCTGATCAAGAAATAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
16887672 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
16887707 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 12 0.12
36 3 0.03
37 89 0.86
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:16889320 original size:13 final size:13
Alignment explanation
Indices: 16889293--16889360 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 13
16889283 GTATAAGCAC
16889293 TTCATATAACCAT
1 TTCATATAACCAT
* *
16889306 TTCATATATCTAT
1 TTCATATAACCAT
*
16889319 TTCCATATAAACAT
1 TT-CATATAACCAT
** *
16889333 TTTGTATATCCAT
1 TTCATATAACCAT
16889346 TTCATA-ATACCAT
1 TTCATATA-ACCAT
16889359 TT
1 TT
16889361 TCGTTTACTC
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
12 1 0.02
13 30 0.73
14 10 0.24
ACGTcount: A:0.34, C:0.19, G:0.01, T:0.46
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:16889333 original size:27 final size:27
Alignment explanation
Indices: 16889295--16889348 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
16889285 ATAAGCACTT
* *
16889295 CATATAACCATTTCATATATCTATTTC
1 CATATAAACATTTCATATATCCATTTC
**
16889322 CATATAAACATTTTGTATATCCATTTC
1 CATATAAACATTTCATATATCCATTTC
16889349 ATAATACCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.44
Consensus pattern (27 bp):
CATATAAACATTTCATATATCCATTTC
Found at i:16889350 original size:53 final size:53
Alignment explanation
Indices: 16889252--16889360 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 53
16889242 TAAATGTCCC
* *
16889252 TTTCACATATCTATATTCATATAAATATTTTGTATAAGCACTTCAT-ATAACCA
1 TTTCACATATCTATATTCATATAAACATTTTGTATAACCACTTCATAAT-ACCA
* * *
16889305 TTTCATATATCTAT-TTCCATATAAACATTTTGTATATCCATTTCATAATACCA
1 TTTCACATATCTATATT-CATATAAACATTTTGTATAACCACTTCATAATACCA
16889358 TTT
1 TTT
16889361 TCGTTTACTC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 2 0.04
53 45 0.92
54 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (53 bp):
TTTCACATATCTATATTCATATAAACATTTTGTATAACCACTTCATAATACCA
Found at i:16893487 original size:8 final size:8
Alignment explanation
Indices: 16893474--16893505 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
16893464 ATTTTATCTT
16893474 TAATTACC
1 TAATTACC
16893482 TAATTACC
1 TAATTACC
16893490 TAATTACC
1 TAATTACC
*
16893498 AAATTACC
1 TAATTACC
16893506 CTTACTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (8 bp):
TAATTACC
Found at i:16905131 original size:21 final size:21
Alignment explanation
Indices: 16905105--16905150 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
16905095 TATATTTTTA
16905105 TTTTTTATTTTTAAAATAATT
1 TTTTTTATTTTTAAAATAATT
16905126 TTTTTTATTTTTAAAATAATT
1 TTTTTTATTTTTAAAATAATT
16905147 TTTT
1 TTTT
16905151 AATGTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTTATTTTTAAAATAATT
Found at i:16909459 original size:14 final size:15
Alignment explanation
Indices: 16909428--16909464 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
16909418 ATTATGTTAA
16909428 AATAAAATTTTATTAG
1 AATAAAA-TTTATTAG
16909444 AATAAAATTT-TTAG
1 AATAAAATTTATTAG
16909458 AA-AAAAT
1 AATAAAAT
16909465 CAATATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 6 0.29
15 3 0.14
16 7 0.33
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
AATAAAATTTATTAG
Found at i:16916241 original size:34 final size:33
Alignment explanation
Indices: 16916201--16916306 Score: 126
Period size: 34 Copynumber: 3.2 Consensus size: 33
16916191 AAATATAAAA
16916201 ATAAAATATTTGAAATATTTTAATATAATTTAAT
1 ATAAAATATTT-AAATATTTTAATATAATTTAAT
** *
16916235 ATAAAATATTT-AAT-TTCAAAGTATAATTTAAA
1 ATAAAATATTTAAATATTTTAA-TATAATTTAAT
* *
16916267 ATAAAGTATTTTAAAAATTTTAATATAATTTAAT
1 ATAAAATA-TTTAAATATTTTAATATAATTTAAT
16916301 ATAAAA
1 ATAAAA
16916307 ATAATTATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
31 4 0.07
32 20 0.34
33 3 0.05
34 28 0.47
35 4 0.07
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (33 bp):
ATAAAATATTTAAATATTTTAATATAATTTAAT
Found at i:16922221 original size:46 final size:46
Alignment explanation
Indices: 16922154--16922245 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
16922144 GACCAGAAAA
16922154 GATTGTTTTTCTACGACTTCCTCTCTCTCATGGTCTTTTCTTTTGT
1 GATTGTTTTTCTACGACTTCCTCTCTCTCATGGTCTTTTCTTTTGT
16922200 GATTGTTTTTCTACGACTTCCTCTCTCTCATGGTCTTTTCTTTTGT
1 GATTGTTTTTCTACGACTTCCTCTCTCTCATGGTCTTTTCTTTTGT
16922246 TACTGGTCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.09, C:0.24, G:0.13, T:0.54
Consensus pattern (46 bp):
GATTGTTTTTCTACGACTTCCTCTCTCTCATGGTCTTTTCTTTTGT
Found at i:16935793 original size:29 final size:29
Alignment explanation
Indices: 16935751--16935813 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
16935741 ACCGCCCTTC
16935751 AACTTCCGAAGATTCTCCTGCTTCGCAAT
1 AACTTCCGAAGATTCTCCTGCTTCGCAAT
16935780 AACTTCCGAAGATTCTCCTGCTTCGCAAT
1 AACTTCCGAAGATTCTCCTGCTTCGCAAT
16935809 AACTT
1 AACTT
16935814 TGTTCTGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (29 bp):
AACTTCCGAAGATTCTCCTGCTTCGCAAT
Found at i:16938962 original size:21 final size:21
Alignment explanation
Indices: 16938916--16938963 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
16938906 TACTGTTTTG
16938916 AATATTTGAATTTATTTTCTT
1 AATATTTGAATTTATTTTCTT
*
16938937 TATATTT-AATTTAATTTT-TAT
1 AATATTTGAATTT-ATTTTCT-T
16938958 AATATT
1 AATATT
16938964 ATTAGTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
AATATTTGAATTTATTTTCTT
Found at i:16939872 original size:16 final size:15
Alignment explanation
Indices: 16939853--16939882 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16939843 ACTATTGAGA
16939853 ATAATAAAAGTTTACT
1 ATAATAAAA-TTTACT
16939869 ATAATAAAATTTAC
1 ATAATAAAATTTAC
16939883 GATTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (15 bp):
ATAATAAAATTTACT
Found at i:16947984 original size:24 final size:24
Alignment explanation
Indices: 16947956--16948010 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
16947946 TATATCACTA
16947956 CATCTTTCCGGCT-ATCCTTCTTCT
1 CATCTTT-CGGCTCATCCTTCTTCT
**
16947980 CATCTTTCTTCTCATCCTTCTTCT
1 CATCTTTCGGCTCATCCTTCTTCT
*
16948004 CCTCTTT
1 CATCTTT
16948011 TGCGGCCCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.07, C:0.38, G:0.04, T:0.51
Consensus pattern (24 bp):
CATCTTTCGGCTCATCCTTCTTCT
Found at i:16947990 original size:12 final size:12
Alignment explanation
Indices: 16947973--16948010 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
16947963 CCGGCTATCC
16947973 TTCTTCTCATCT
1 TTCTTCTCATCT
*
16947985 TTCTTCTCATCC
1 TTCTTCTCATCT
*
16947997 TTCTTCTCCTCT
1 TTCTTCTCATCT
16948009 TT
1 TT
16948011 TGCGGCCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.05, C:0.37, G:0.00, T:0.58
Consensus pattern (12 bp):
TTCTTCTCATCT
Found at i:16953094 original size:3 final size:3
Alignment explanation
Indices: 16953083--16953114 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
16953073 AAAATCCAAA
16953083 AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16953115 CAAGCAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16958589 original size:13 final size:13
Alignment explanation
Indices: 16958571--16958598 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16958561 AGTTTATCGG
16958571 AATTATTATAATT
1 AATTATTATAATT
16958584 AATTATTATAATT
1 AATTATTATAATT
16958597 AA
1 AA
16958599 GATTTTGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTATTATAATT
Found at i:16969637 original size:24 final size:25
Alignment explanation
Indices: 16969608--16969668 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
16969598 ATGAAACAAC
*
16969608 AAAAAGAAAATA-TATTCTAAAAAG
1 AAAAAGAAAATACTAATCTAAAAAG
* *
16969632 GAAAAGAAAA-ACTTAATCTAAAAAT
1 AAAAAGAAAATAC-TAATCTAAAAAG
16969657 AAAAAGAAAATA
1 AAAAAGAAAATA
16969669 AACAAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 9 0.30
25 19 0.63
26 1 0.03
ACGTcount: A:0.69, C:0.05, G:0.08, T:0.18
Consensus pattern (25 bp):
AAAAAGAAAATACTAATCTAAAAAG
Found at i:16969678 original size:16 final size:16
Alignment explanation
Indices: 16969657--16969687 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16969647 ATCTAAAAAT
*
16969657 AAAAAGAAAATAAACA
1 AAAAAGAAAAGAAACA
16969673 AAAAAGAAAAGAAAC
1 AAAAAGAAAAGAAAC
16969688 TTAACGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.06, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAAGAAACA
Found at i:16973600 original size:69 final size:69
Alignment explanation
Indices: 16973513--16973642 Score: 251
Period size: 69 Copynumber: 1.9 Consensus size: 69
16973503 TGGGATGCTA
*
16973513 AAACTATGCTATGATCATGTAGAATAATGATTTCAAGCTATAACCAAAGTTTGCATGAAGCCGAG
1 AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGCCGAG
16973578 ATAG
66 ATAG
16973582 AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGC
1 AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGC
16973643 ATATCTGAAG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (69 bp):
AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGCCGAG
ATAG
Found at i:16977511 original size:6 final size:6
Alignment explanation
Indices: 16977500--16977524 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16977490 GTTTCAACCT
16977500 CTCCCA CTCCCA CTCCCA CTCCCA C
1 CTCCCA CTCCCA CTCCCA CTCCCA C
16977525 ATTCCATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.68, G:0.00, T:0.16
Consensus pattern (6 bp):
CTCCCA
Found at i:16978878 original size:15 final size:15
Alignment explanation
Indices: 16978858--16978887 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16978848 CATATTCCAT
*
16978858 TTAATATTATATAAA
1 TTAATATAATATAAA
16978873 TTAATATAATATAAA
1 TTAATATAATATAAA
16978888 AATTATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATATAATATAAA
Found at i:16982720 original size:38 final size:37
Alignment explanation
Indices: 16982670--16982849 Score: 132
Period size: 38 Copynumber: 4.6 Consensus size: 37
16982660 ATAGTATTAT
*
16982670 ATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
**** *
16982707 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAAGAATATT---TA
* * * *
16982747 ATATTTAATAATAATTATTTTAAATTATATTA-TATAGTATTA
1 ATA-TTAAGAAT--TT-TATTAAATTATATAAGAATA-T-TTA
*
16982789 TATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
16982827 ATATTAAGAATTTTATTAAATTA
1 ATATTAAGAATTTTATTAAATTA
16982850 AATATTTTTA
Statistics
Matches: 111, Mismatches: 18, Indels: 28
0.71 0.11 0.18
Matches are distributed among these distances:
37 24 0.22
38 37 0.33
39 8 0.07
40 7 0.06
41 9 0.08
42 4 0.04
43 8 0.07
44 13 0.12
45 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:16982769 original size:26 final size:26
Alignment explanation
Indices: 16982740--16982898 Score: 76
Period size: 26 Copynumber: 6.5 Consensus size: 26
16982730 TATATTTTTA
16982740 TTAAATTATATTTAATAATAATTATT
1 TTAAATTATATTTAATAATAATTATT
*
16982766 TTAAATTATA-TT-AT-AT-AGTATT
1 TTAAATTATATTTAATAATAATTATT
* * * *
16982788 ATATATTATGATTTTATTA-AATTCA-T
1 TTAAATTAT-ATTTAATAATAATT-ATT
* * **
16982814 ATAAGA--ATATTTAATATTAAGAATT
1 TTAA-ATTATATTTAATAATAATTATT
* *
16982839 TT--ATTA-AATT-A-AAT-ATTTTT
1 TTAAATTATATTTAATAATAATTATT
*
16982859 ATTAAATTATATTTAATAATAATTATG
1 -TTAAATTATATTTAATAATAATTATT
16982886 TTAAATTATATTT
1 TTAAATTATATTT
16982899 TATAGTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 36
0.64 0.13 0.24
Matches are distributed among these distances:
20 3 0.03
21 4 0.04
22 14 0.15
23 10 0.10
24 15 0.16
25 11 0.11
26 33 0.34
27 6 0.06
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (26 bp):
TTAAATTATATTTAATAATAATTATT
Found at i:16982791 original size:120 final size:120
Alignment explanation
Indices: 16982652--16983012 Score: 589
Period size: 120 Copynumber: 3.0 Consensus size: 120
16982642 ATTATTAATC
16982652 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
16982717 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
16982772 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
* *
16982837 TTTTATTAAATTAAATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
* * * * * * *
16982892 TATATTTTATAGTATAATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAATAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
* * *
16982957 TATCATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTTAAAT
66 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTAT-TTTAAAT
16983013 ATGATTAAAT
Statistics
Matches: 225, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
120 217 0.96
121 8 0.04
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (120 bp):
TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
Found at i:16982990 original size:16 final size:16
Alignment explanation
Indices: 16982969--16983010 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
16982959 TCATTAAATT
*
16982969 ATATATTTTAATTATA
1 ATATATTTTAATAATA
16982985 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
16983000 AT-TATGTTTAA
1 ATATAT-TTTAA
16983011 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:16982993 original size:15 final size:15
Alignment explanation
Indices: 16982953--16983001 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
16982943 TTGATTATTA
*
16982953 ATAATATCATTAAATT
1 ATAATAT-ATTTAATT
16982969 AT-ATAT-TTTAATT
1 ATAATATATTTAATT
*
16982982 ATAATATATTTAATA
1 ATAATATATTTAATT
16982997 ATAAT
1 ATAAT
16983002 TATGTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 8 0.28
14 4 0.14
15 15 0.52
16 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAATATATTTAATT
Found at i:16983248 original size:16 final size:16
Alignment explanation
Indices: 16983227--16983278 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
16983217 GATTTGCTAT
16983227 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
16983243 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
16983259 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16983275 TACA
1 TACA
16983279 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:16986688 original size:30 final size:30
Alignment explanation
Indices: 16986652--16986726 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
16986642 ATGGAAAATT
16986652 AAAGATATGGGTATCAAATAATAGAAAGTC
1 AAAGATATGGGTATCAAATAATAGAAAGTC
* *
16986682 AAAGATATGGGTATCAAATATTGGAAAGTC
1 AAAGATATGGGTATCAAATAATAGAAAGTC
*
16986712 AAATATATGGGTATC
1 AAAGATATGGGTATC
16986727 GAGATATTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.27
Consensus pattern (30 bp):
AAAGATATGGGTATCAAATAATAGAAAGTC
Found at i:16986698 original size:15 final size:15
Alignment explanation
Indices: 16986656--16986726 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
16986646 AAAATTAAAG
16986656 ATATGGGTATCAAAT
1 ATATGGGTATCAAAT
* ** *
16986671 A-ATAGAAAGTCAAAG
1 ATATGGGTA-TCAAAT
16986686 ATATGGGTATCAAAT
1 ATATGGGTATCAAAT
**
16986701 AT-TGGAAAGTCAAAT
1 ATATGGGTA-TCAAAT
16986716 ATATGGGTATC
1 ATATGGGTATC
16986727 GAGATATTGA
Statistics
Matches: 40, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
14 8 0.20
15 24 0.60
16 8 0.20
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (15 bp):
ATATGGGTATCAAAT
Found at i:16991325 original size:15 final size:15
Alignment explanation
Indices: 16991305--16991412 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
16991295 TTTATGGAAA
16991305 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
16991320 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
16991334 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
16991350 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
16991364 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
16991380 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
16991394 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
16991410 ATC
1 ATC
16991413 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:16991342 original size:30 final size:30
Alignment explanation
Indices: 16991299--16991422 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
16991289 TCCATATTTA
* *
16991299 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
16991329 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
16991359 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
16991389 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
16991420 TGG
1 TGG
16991423 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:17004993 original size:15 final size:15
Alignment explanation
Indices: 17004975--17005038 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
17004965 AACTAAAATT
17004975 TATTTTTCAAAAAAA
1 TATTTTTCAAAAAAA
*
17004990 TATTTGTTC-AAATAA
1 TATTT-TTCAAAAAAA
* * * *
17005005 TCTTTTTTATAAAAT
1 TATTTTTCAAAAAAA
*
17005020 TATTTTTCAAAAAAT
1 TATTTTTCAAAAAAA
17005035 TATT
1 TATT
17005039 CGAACGGGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
14 2 0.05
15 33 0.87
16 3 0.08
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (15 bp):
TATTTTTCAAAAAAA
Found at i:17012686 original size:17 final size:17
Alignment explanation
Indices: 17012666--17012700 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17012656 ATGAATATAG
17012666 AGAAAAAGAA-GGAAATA
1 AGAAAAA-AATGGAAATA
17012683 AGAAAAAAATGGAAATA
1 AGAAAAAAATGGAAATA
17012700 A
1 A
17012701 TTTTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (17 bp):
AGAAAAAAATGGAAATA
Found at i:17035656 original size:3 final size:3
Alignment explanation
Indices: 17035648--17035676 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17035638 GGCGGCAATC
17035648 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
17035677 CTAGTTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:17040556 original size:81 final size:81
Alignment explanation
Indices: 17040457--17040631 Score: 305
Period size: 81 Copynumber: 2.1 Consensus size: 81
17040447 GAAATGAATG
17040457 ACTATGTGAAAGTATATCCGATTCAGGTACGTACGAAGTGTATATGATATTCAAGAATGAAAGGT
1 ACTATGTGAAAGTATATCCGATTCAGGTACGTACGAAGTGTATATGATATTCAAGAATGAAAGGT
*
17040522 GAGTCTGTTTCAAATA
66 GAGTATGTTTCAAATA
*
17040538 ACTATGTGAAAGTATATCCGATTTAGGTACGTACGAAGTGTATATGATATTCAAGAATGAAAGGT
1 ACTATGTGAAAGTATATCCGATTCAGGTACGTACGAAGTGTATATGATATTCAAGAATGAAAGGT
*
17040603 GAGTATGTTTCAAATG
66 GAGTATGTTTCAAATA
17040619 ACGATATGTGAAA
1 AC--TATGTGAAA
17040632 TACATGAAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
81 80 0.90
83 9 0.10
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.31
Consensus pattern (81 bp):
ACTATGTGAAAGTATATCCGATTCAGGTACGTACGAAGTGTATATGATATTCAAGAATGAAAGGT
GAGTATGTTTCAAATA
Found at i:17044826 original size:7 final size:7
Alignment explanation
Indices: 17044816--17044856 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
17044806 GTTTTATTTC
17044816 ATATTAT
1 ATATTAT
17044823 ATATTAT
1 ATATTAT
17044830 ATATTAT
1 ATATTAT
*
17044837 ATTACTATT
1 A-TATTA-T
17044846 ATATTAT
1 ATATTAT
17044853 ATAT
1 ATAT
17044857 ATAGTAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 20 0.67
8 8 0.27
9 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (7 bp):
ATATTAT
Found at i:17044850 original size:16 final size:15
Alignment explanation
Indices: 17044816--17044854 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
17044806 GTTTTATTTC
*
17044816 ATATTATA-TATTAT
1 ATATTATATTACTAT
17044830 ATATTATATTACTATT
1 ATATTATATTACTA-T
17044846 ATATTATAT
1 ATATTATAT
17044855 ATATAGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 10 0.45
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTATATTACTAT
Found at i:17045246 original size:21 final size:21
Alignment explanation
Indices: 17045221--17045288 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
17045211 TGTTTTTGAG
17045221 TACTGAATTGAATTGTGAAGT
1 TACTGAATTGAATTGTGAAGT
* *
17045242 TACTGAA-T--ATTGTTATGT
1 TACTGAATTGAATTGTGAAGT
* * *
17045260 GTACTGCATTGAACTGTGAAAT
1 -TACTGAATTGAATTGTGAAGT
17045282 TACTGAA
1 TACTGAA
17045289 GTAATGAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 8 0.23
19 6 0.17
20 2 0.06
21 13 0.37
22 6 0.17
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (21 bp):
TACTGAATTGAATTGTGAAGT
Found at i:17045264 original size:40 final size:40
Alignment explanation
Indices: 17045181--17045288 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
17045171 TTGAGACTGA
* * * * *
17045181 TACTGAATTGCATTATGAAATACCGAATATTGTTTTTGAG
1 TACTGAATTGAATTGTGAATTACTGAATATTGTTTATGAG
*
17045221 TACTGAATTGAATTGTGAAGTTACTGAATATTG-TTATGTG
1 TACTGAATTGAATTGTGAA-TTACTGAATATTGTTTATGAG
* *
17045261 TACTGCATTGAACTGTGAAATTACTGAA
1 TACTGAATTGAATTGTG-AATTACTGAA
17045289 GTAATGAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 45 0.78
41 13 0.22
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (40 bp):
TACTGAATTGAATTGTGAATTACTGAATATTGTTTATGAG
Found at i:17045558 original size:45 final size:45
Alignment explanation
Indices: 17045491--17045587 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 45
17045481 GCCGACTACT
* * *
17045491 GTTACTGTTACTGATTCGACACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTATTACC
* *
17045536 GTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTATTACT
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTATTACC
17045581 GTTACTG
1 GTTACTG
17045588 CTACCGTTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.41
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTATTACC
Found at i:17048287 original size:32 final size:31
Alignment explanation
Indices: 17048226--17048288 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 31
17048216 TTTTTAAAAT
*
17048226 TATTTTTTAAAATTTTAATTAGTTTTTTTTCA
1 TATTTTTTAAAATTATAATTA-TTTTTTTTCA
*
17048258 TATTTTTTAAAAATTATAATTTTTATTTTTT
1 TATTTTTT-AAAATTATAATTATT-TTTTTT
17048289 TTATTGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (31 bp):
TATTTTTTAAAATTATAATTATTTTTTTTCA
Found at i:17066593 original size:6 final size:6
Alignment explanation
Indices: 17066554--17066590 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
17066544 GAATGAAAGC
*
17066554 GGCGTT GGCGTT GGCGTT GGCGTT GGCGTT GACGTT G
1 GGCGTT GGCGTT GGCGTT GGCGTT GGCGTT GGCGTT G
17066591 ACGATGGGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.03, C:0.16, G:0.49, T:0.32
Consensus pattern (6 bp):
GGCGTT
Found at i:17071922 original size:18 final size:18
Alignment explanation
Indices: 17071901--17071937 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17071891 TCATTAATTT
* *
17071901 TAAATTTTATTATTAAAA
1 TAAATTGTACTATTAAAA
17071919 TAAATTGTACTATTAAAA
1 TAAATTGTACTATTAAAA
17071937 T
1 T
17071938 TTTATTAAAA
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:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TAAATTGTACTATTAAAA
Found at i:17077496 original size:48 final size:48
Alignment explanation
Indices: 17077435--17077632 Score: 243
Period size: 48 Copynumber: 4.1 Consensus size: 48
17077425 AACTGATTTC
* * * * * *
17077435 TCGGTGGCTTGCACACAGTCCGTACCACCTTTGTGTAATAACAGATTC
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * * *
17077483 TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACCGGTTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * * *
17077531 TTGGTGGCCTGCACACAATCCGTGCCACCCTTGTATCATTACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * *
17077579 TCAGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
17077627 TCGGTG
1 TCGGTG
17077633 CGCATAGTAG
Statistics
Matches: 126, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 126 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
Found at i:17080083 original size:50 final size:50
Alignment explanation
Indices: 17079962--17080210 Score: 318
Period size: 50 Copynumber: 4.8 Consensus size: 50
17079952 GATAATAACA
* ** * *
17079962 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCCTATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * **
17080013 TGCCCATGCCATGTCCCAGACATGGTCTTCCGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
17080063 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
17080113 TGTCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* *
17080168 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
17080211 TTACCCAAAT
Statistics
Matches: 174, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
50 96 0.55
51 32 0.18
53 5 0.03
55 2 0.01
56 39 0.22
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:17080326 original size:13 final size:13
Alignment explanation
Indices: 17080305--17080336 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17080295 GCTTGGATCA
*
17080305 TCATCAAATAAAT
1 TCATAAAATAAAT
17080318 TCATAAAATAAAT
1 TCATAAAATAAAT
17080331 TCATAA
1 TCATAA
17080337 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:17084698 original size:185 final size:185
Alignment explanation
Indices: 17084386--17084942 Score: 1105
Period size: 185 Copynumber: 3.0 Consensus size: 185
17084376 AGTGTAAAAG
17084386 TTACTAGAATGATTAAATAGCTCAATTGTTAAATGATGAGGGACATAAATTGAAAATAAGCCCAA
1 TTACTAGAATGATTAAATAGCTCAATTGTTAAATGATGAGGGACATAAATTGAAAATAAGCCCAA
17084451 AAGGAGATATTTTGGGCGGCATAAGCTGAGAAAAATAGGAGAATTGGTGAAATAAGGGCAAAATG
66 AAGGAGATATTTTGGGCGGCATAAGCTGAGAAAAATAGGAGAATTGGTGAAATAAGGGCAAAATG
*
17084516 GGAAAATAACAAAATTTACTAAAATAAAAATGAGACCAACTTGTAATATCTAGAA
131 GGAAAATAACAAAATTTACTAAAATAAAAATGGGACCAACTTGTAATATCTAGAA
17084571 TTACTAGAATGATTAAATAGCTCAATTGTTAAATGATGAGGGACATAAATTGAAAATAAGCCCAA
1 TTACTAGAATGATTAAATAGCTCAATTGTTAAATGATGAGGGACATAAATTGAAAATAAGCCCAA
17084636 AAGGAGATATTTTGGGCGGCATAAGCTGAGAAAAATAGGAGAATTGGTGAAATAAGGGCAAAATG
66 AAGGAGATATTTTGGGCGGCATAAGCTGAGAAAAATAGGAGAATTGGTGAAATAAGGGCAAAATG
17084701 GGAAAATAACAAAATTTACTAAAATAAAAATGGGACCAACTTGTAATATCTAGAA
131 GGAAAATAACAAAATTTACTAAAATAAAAATGGGACCAACTTGTAATATCTAGAA
17084756 TTACTAGAATGATTAAATAGCTCAATTGTTAAATGATGAGGGACATAAATTGAAAATAAGCCCAA
1 TTACTAGAATGATTAAATAGCTCAATTGTTAAATGATGAGGGACATAAATTGAAAATAAGCCCAA
17084821 AAGGAGATATTTTGGGCGGCATAAGCTGAGAAAAATAGGAGAATTGGTGAAATAAGGGCAAAATG
66 AAGGAGATATTTTGGGCGGCATAAGCTGAGAAAAATAGGAGAATTGGTGAAATAAGGGCAAAATG
17084886 GGAAAATAACAAAATTTACTAAAATAAAAATGGGACCAACTTGTAATATCTAGAA
131 GGAAAATAACAAAATTTACTAAAATAAAAATGGGACCAACTTGTAATATCTAGAA
17084941 TT
1 TT
17084943 CTCTTCATAT
Statistics
Matches: 371, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
185 371 1.00
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.24
Consensus pattern (185 bp):
TTACTAGAATGATTAAATAGCTCAATTGTTAAATGATGAGGGACATAAATTGAAAATAAGCCCAA
AAGGAGATATTTTGGGCGGCATAAGCTGAGAAAAATAGGAGAATTGGTGAAATAAGGGCAAAATG
GGAAAATAACAAAATTTACTAAAATAAAAATGGGACCAACTTGTAATATCTAGAA
Found at i:17113884 original size:16 final size:18
Alignment explanation
Indices: 17113845--17113885 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
17113835 TTAATTAATC
17113845 TATCAAATTAACTACTTT
1 TATCAAATTAACTACTTT
*
17113863 TCTCAAATTAA-TA-TTT
1 TATCAAATTAACTACTTT
17113879 TATCAAA
1 TATCAAA
17113886 ATATTCTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 9 0.43
17 2 0.10
18 10 0.48
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (18 bp):
TATCAAATTAACTACTTT
Found at i:17118290 original size:23 final size:23
Alignment explanation
Indices: 17118255--17118306 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
17118245 GCCTTTGACT
* *
17118255 GAACGATAATGTATTTCATTCTC
1 GAACGACAATGTATTTCATTCCC
* *
17118278 GAACGACAGTGTATTTTATTCCC
1 GAACGACAATGTATTTCATTCCC
17118301 GAACGA
1 GAACGA
17118307 GTAGTCCCGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (23 bp):
GAACGACAATGTATTTCATTCCC
Found at i:17139402 original size:31 final size:30
Alignment explanation
Indices: 17139364--17139470 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 30
17139354 TTAGGAAGTC
*
17139364 CTTATTTGAGCACTTTCAAAAAGGTCTGGCT
1 CTTATTTGAGCACTTTC-AAAAGGTTTGGCT
* *
17139395 CTTATTTGAGCACTTCCCAAAAGTTTTGGC-
1 CTTATTTGAGCACTT-TCAAAAGGTTTGGCT
* *
17139425 CATTACTTGAGCACTTT-GAAAGGTTTGGCT
1 C-TTATTTGAGCACTTTCAAAAGGTTTGGCT
17139455 -TTCATTTGAGCACTTT
1 CTT-ATTTGAGCACTTT
17139471 TGTAAAGGTT
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.03
29 22 0.34
30 1 0.02
31 38 0.59
32 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (30 bp):
CTTATTTGAGCACTTTCAAAAGGTTTGGCT
Found at i:17139453 original size:29 final size:31
Alignment explanation
Indices: 17139414--17139480 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 31
17139404 GCACTTCCCA
*
17139414 AAAGTTTTGGCCATT-ACTTGAGCAC-TTTG-
1 AAAGGTTTGG-CATTCACTTGAGCACTTTTGT
* *
17139443 AAAGGTTTGGCTTTCATTTGAGCACTTTTGT
1 AAAGGTTTGGCATTCACTTGAGCACTTTTGT
17139474 AAAGGTT
1 AAAGGTT
17139481 AAGCCGTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 3 0.09
29 18 0.56
30 4 0.12
31 7 0.22
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.40
Consensus pattern (31 bp):
AAAGGTTTGGCATTCACTTGAGCACTTTTGT
Found at i:17142283 original size:13 final size:13
Alignment explanation
Indices: 17142265--17142291 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17142255 TACATTATGG
17142265 AGTTAACTAAGCA
1 AGTTAACTAAGCA
17142278 AGTTAACTAAGCA
1 AGTTAACTAAGCA
17142291 A
1 A
17142292 ATCCCTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AGTTAACTAAGCA
Found at i:17152368 original size:17 final size:18
Alignment explanation
Indices: 17152327--17152370 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
17152317 TTTATCAAAT
* *
17152327 AAATTATTAAAAATTTAT
1 AAATAATTAAAAATTTAA
17152345 AAA-AATTAAAAA-TTAA
1 AAATAATTAAAAATTTAA
17152361 AAATAATTAA
1 AAATAATTAA
17152371 GTTGATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.26
17 14 0.61
18 3 0.13
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATAATTAAAAATTTAA
Found at i:17153438 original size:32 final size:33
Alignment explanation
Indices: 17153400--17153484 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
17153390 TAATCAGTAT
17153400 GAGTTATCAAATTAAAATAATT-AATTTATCAC
1 GAGTTATCAAATTAAAATAATTAAATTTATCAC
* * **
17153432 GAGTTATTAAATTATAATGCTTCAAATTTATCAC
1 GAGTTATCAAATTAAAATAATT-AAATTTATCAC
* *
17153466 GAGTAATCAATTTATAAAT
1 GAGTTATCAAATTA-AAAT
17153485 TTATAATGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 18 0.43
34 21 0.50
35 3 0.07
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (33 bp):
GAGTTATCAAATTAAAATAATTAAATTTATCAC
Found at i:17156430 original size:12 final size:12
Alignment explanation
Indices: 17156413--17156439 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17156403 TGATTCTTTC
17156413 TTCCATATTGTT
1 TTCCATATTGTT
17156425 TTCCATATTGTT
1 TTCCATATTGTT
17156437 TTC
1 TTC
17156440 TAGAGAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.19, G:0.07, T:0.59
Consensus pattern (12 bp):
TTCCATATTGTT
Found at i:17157615 original size:16 final size:14
Alignment explanation
Indices: 17157592--17157642 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
17157582 CGAAAGGAAA
17157592 GAAAATTGGAAGGAT
1 GAAAATT-GAAGGAT
17157607 GAAAGATTGAAGGAT
1 GAAA-ATTGAAGGAT
*
17157622 AGAAAACTAGAAGGAT
1 -GAAAA-TTGAAGGAT
17157638 GAAAA
1 GAAAA
17157643 ACATAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 17 0.53
16 15 0.47
ACGTcount: A:0.53, C:0.02, G:0.29, T:0.16
Consensus pattern (14 bp):
GAAAATTGAAGGAT
Found at i:17165305 original size:19 final size:20
Alignment explanation
Indices: 17165266--17165307 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17165256 TTTTTAAATA
*
17165266 AAAAAATAAAAACCAGTTTT
1 AAAAAATAAAAACCAGATTT
*
17165286 AAAAAATAAAAGCCA-ATTT
1 AAAAAATAAAAACCAGATTT
17165305 AAA
1 AAA
17165308 TAGTATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAAAATAAAAACCAGATTT
Found at i:17170908 original size:9 final size:9
Alignment explanation
Indices: 17170894--17170921 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
17170884 TAATTTGACA
17170894 TTTTTAAAT
1 TTTTTAAAT
17170903 TTTTTAAAT
1 TTTTTAAAT
17170912 TTTTTAAAT
1 TTTTTAAAT
17170921 T
1 T
17170922 AACTCGAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:17175479 original size:14 final size:16
Alignment explanation
Indices: 17175444--17175478 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
17175434 TAAACTGAAA
*
17175444 AAAAATATAAGTGTTG
1 AAAAATATAAGTATTG
17175460 AAAAATA-AAGTATTG
1 AAAAATATAAGTATTG
17175475 AAAA
1 AAAA
17175479 TTTAACTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (16 bp):
AAAAATATAAGTATTG
Found at i:17186697 original size:21 final size:20
Alignment explanation
Indices: 17186672--17186722 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
17186662 CCAAAACCTC
*
17186672 AAACCCCCAAATCATAATCCA
1 AAACCCCAAAATC-TAATCCA
* *
17186693 AAACCCTAAAATCTAATCTA
1 AAACCCCAAAATCTAATCCA
17186713 AAA-CCCAAAA
1 AAACCCCAAAA
17186723 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 6 0.23
20 9 0.35
21 11 0.42
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (20 bp):
AAACCCCAAAATCTAATCCA
Found at i:17186709 original size:20 final size:20
Alignment explanation
Indices: 17186680--17186722 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
17186670 TCAAACCCCC
17186680 AAATCATAATCCAAAACCCTA
1 AAATCATAATCCAAAACCC-A
*
17186701 AAATC-TAATCTAAAACCCA
1 AAATCATAATCCAAAACCCA
17186720 AAA
1 AAA
17186723 GAAAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.19
Consensus pattern (20 bp):
AAATCATAATCCAAAACCCA
Found at i:17191477 original size:18 final size:18
Alignment explanation
Indices: 17191456--17191508 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
17191446 GATTTGGATG
17191456 GATGATTGGATGCGGTGC
1 GATGATTGGATGCGGTGC
*
17191474 GATGGATT---TG-GATG-
1 GAT-GATTGGATGCGGTGC
17191488 GATGATTGGATGCGGTGC
1 GATGATTGGATGCGGTGC
17191506 GAT
1 GAT
17191509 ATATTTAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
13 4 0.15
14 3 0.11
15 3 0.11
16 4 0.15
17 3 0.11
18 6 0.22
19 4 0.15
ACGTcount: A:0.19, C:0.08, G:0.43, T:0.30
Consensus pattern (18 bp):
GATGATTGGATGCGGTGC
Done.