Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 112 of 129
Found at i:18749675 original size:21 final size:21
Alignment explanation
Indices: 18749651--18749716 Score: 123
Period size: 21 Copynumber: 3.1 Consensus size: 21
18749641 ACTTCACATC
18749651 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
18749672 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
18749693 TCAAAGACTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
18749714 TCA
1 TCA
18749717 TAACTTTATC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:18750135 original size:23 final size:23
Alignment explanation
Indices: 18750109--18750152 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
18750099 TTGGGACAAG
*
18750109 TTTCATCAATTGATCATCATTAT
1 TTTCATCAATTGATCACCATTAT
*
18750132 TTTCATCACTTGATCACCATT
1 TTTCATCAATTGATCACCATT
18750153 CATAGGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.23, G:0.05, T:0.45
Consensus pattern (23 bp):
TTTCATCAATTGATCACCATTAT
Found at i:18751028 original size:10 final size:10
Alignment explanation
Indices: 18751015--18751071 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
18751005 TTTTCTTTTT
18751015 TTTTTTCATC
1 TTTTTTCATC
18751025 TTTTTTCA--
1 TTTTTTCATC
*
18751033 TTTTTTCATTT
1 TTTTTTCA-TC
18751044 TTTTTTCA-C
1 TTTTTTCATC
*
18751053 -TTTTTGATC
1 TTTTTTCATC
18751062 TTTTTTCATC
1 TTTTTTCATC
18751072 CATTAATGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
8 14 0.36
9 1 0.03
10 16 0.41
11 8 0.21
ACGTcount: A:0.11, C:0.16, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTTTTCATC
Found at i:18751038 original size:19 final size:18
Alignment explanation
Indices: 18751015--18751070 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
18751005 TTTTCTTTTT
18751015 TTTTTTCATCTTTTTTCA
1 TTTTTTCATCTTTTTTCA
*
18751033 TTTTTTCATTTTTTTTTCA
1 TTTTTTCA-TCTTTTTTCA
* *
18751052 CTTTTTGATCTTTTTTCA
1 TTTTTTCATCTTTTTTCA
18751070 T
1 T
18751071 CCATTAATGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.11, C:0.14, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTTCATCTTTTTTCA
Found at i:18751065 original size:29 final size:29
Alignment explanation
Indices: 18751012--18751070 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 29
18751002 TCCTTTTCTT
18751012 TTTTTTTTTCATCTTTTTTCATTTTTTCA
1 TTTTTTTTTCATCTTTTTTCATTTTTTCA
18751041 TTTTTTTTTCA-CTTTTTGATC-TTTTTTCA
1 TTTTTTTTTCATCTTTTT--TCATTTTTTCA
18751070 T
1 T
18751071 CCATTAATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 6 0.21
29 20 0.71
30 2 0.07
ACGTcount: A:0.10, C:0.14, G:0.02, T:0.75
Consensus pattern (29 bp):
TTTTTTTTTCATCTTTTTTCATTTTTTCA
Found at i:18751465 original size:24 final size:24
Alignment explanation
Indices: 18751419--18751466 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18751409 TTGTTTATGG
* * *
18751419 CATTTTTCTTTTTTTTATTTCTTT
1 CATTTTGCTTTTCTTTATCTCTTT
*
18751443 CATTTTGCTTTTCTTTCTCTCTTT
1 CATTTTGCTTTTCTTTATCTCTTT
18751467 AAGACCTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.73
Consensus pattern (24 bp):
CATTTTGCTTTTCTTTATCTCTTT
Found at i:18756701 original size:51 final size:54
Alignment explanation
Indices: 18756622--18756843 Score: 204
Period size: 53 Copynumber: 4.1 Consensus size: 54
18756612 TTGAGCCAAA
* *
18756622 TTAGAAATATTTTCTTATTTT-GAATTTCTAAAGTTTTCACCATTTTGGTCAAT
1 TTAGAAATATTTTATTATTTTGGAATTTCTAAAGTTTTCACCATTTGGGTCAAT
* * * *
18756675 TTAG-AA-ATTTTATT-TTTTGGAATTTCT-AAGTTCTCTACTATTTGGGCCTAT
1 TTAGAAATATTTTATTATTTTGGAATTTCTAAAGTTTTC-ACCATTTGGGTCAAT
* *** * * *
18756726 TTAGAAATTATTTTTATTTCTTTTTTTATTTCTAAATTTTTCACTATTTAGGTCAAT
1 TTAGAAA-TA-TTTTA-TTATTTTGGAATTTCTAAAGTTTTCACCATTTGGGTCAAT
* * * * *
18756783 CTAGAAATATTTTCTT-TTTTGAAATTTCTAAACTTTTCACCATTTGGGTCTAT
1 TTAGAAATATTTTATTATTTTGGAATTTCTAAAGTTTTCACCATTTGGGTCAAT
18756836 TTAGAAAT
1 TTAGAAAT
18756844 TCTTTTTGTT
Statistics
Matches: 136, Mismatches: 24, Indels: 18
0.76 0.13 0.10
Matches are distributed among these distances:
50 11 0.08
51 30 0.22
52 4 0.03
53 41 0.30
54 3 0.02
55 9 0.07
56 4 0.03
57 28 0.21
58 6 0.04
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.52
Consensus pattern (54 bp):
TTAGAAATATTTTATTATTTTGGAATTTCTAAAGTTTTCACCATTTGGGTCAAT
Found at i:18756719 original size:50 final size:52
Alignment explanation
Indices: 18756611--18756744 Score: 123
Period size: 51 Copynumber: 2.6 Consensus size: 52
18756601 TATTCCATAA
* * * *
18756611 TTTGAGCCAAATTAGAAATATTTTCTTATTTTGAATTTCTAAAGTTTTCACCAT
1 TTTGGGCCAATTTAG-AA-ATTTTATTATTTTGAATTTCTAAAGTTCTCACCAT
* *
18756665 TTT-GGTCAATTTAGAAATTTTATT-TTTTGGAATTTCT-AAGTTCTCTACTA-
1 TTTGGGCCAATTTAGAAATTTTATTATTTT-GAATTTCTAAAGTTCTC-ACCAT
* *
18756715 TTTGGGCCTATTTAGAAATTATTTTTATTT
1 TTTGGGCCAATTTAGAAATT-TTATTATTT
18756745 CTTTTTTTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
50 14 0.21
51 32 0.48
52 6 0.09
53 11 0.17
54 3 0.05
ACGTcount: A:0.28, C:0.10, G:0.11, T:0.51
Consensus pattern (52 bp):
TTTGGGCCAATTTAGAAATTTTATTATTTTGAATTTCTAAAGTTCTCACCAT
Found at i:18756828 original size:110 final size:109
Alignment explanation
Indices: 18756645--18756863 Score: 289
Period size: 110 Copynumber: 2.0 Consensus size: 109
18756635 CTTATTTTGA
* * * *
18756645 ATTTCTAAAGTTTTCACCATTTTGGTCAATTTAGAAATTTTATTTTTTGGAATTTCTAAGTTCTC
1 ATTTCTAAAGTTTTCACCATTTAGGTCAATCTAGAAATTTTATTTTTTGAAATTTCTAACTTCTC
*
18756710 TACTATTTGGGCCTATTTAGAAATTATTTTTATTTCTTT-TTTT
66 TACCATTTGGGCCTATTTAGAAATTATTTTTATTTCTTTCTTTT
* * *
18756753 ATTTCTAAATTTTTCACTATTTAGGTCAATCTAGAAATATTTTCTTTTTTGAAATTTCTAAACTT
1 ATTTCTAAAGTTTTCACCATTTAGGTCAATCTAG-AA-ATTTTATTTTTTGAAATTTCT-AACTT
* * * *
18756818 TTC-ACCATTTGGGTCTATTTAGAAATTCTTTTTGTTTCTTTCTTTT
63 CTCTACCATTTGGGCCTATTTAGAAATTATTTTTATTTCTTTCTTTT
18756864 TTTTTTGTTG
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
108 30 0.32
109 2 0.02
110 53 0.56
111 10 0.11
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.54
Consensus pattern (109 bp):
ATTTCTAAAGTTTTCACCATTTAGGTCAATCTAGAAATTTTATTTTTTGAAATTTCTAACTTCTC
TACCATTTGGGCCTATTTAGAAATTATTTTTATTTCTTTCTTTT
Found at i:18757491 original size:12 final size:13
Alignment explanation
Indices: 18757466--18757494 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18757456 AAAAATACTA
18757466 AAAATACATAAAT
1 AAAATACATAAAT
18757479 AAAATAC-TAAAT
1 AAAATACATAAAT
18757491 AAAA
1 AAAA
18757495 AAAAAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATACATAAAT
Found at i:18757495 original size:13 final size:14
Alignment explanation
Indices: 18757464--18757495 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
18757454 GCAAAAATAC
18757464 TAAAAATACATAAA
1 TAAAAATACATAAA
18757478 T-AAAATAC-TAAA
1 TAAAAATACATAAA
18757490 TAAAAA
1 TAAAAA
18757496 AAAAACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.29
13 11 0.65
14 1 0.06
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAAAATACATAAA
Found at i:18758354 original size:10 final size:10
Alignment explanation
Indices: 18758341--18758384 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
18758331 AATTTAACCC
18758341 TTTTTTTCAT
1 TTTTTTTCAT
*
18758351 TTTTCTTCAT
1 TTTTTTTCAT
*
18758361 TTTTTTCCAT
1 TTTTTTTCAT
*
18758371 TTTTATT-AT
1 TTTTTTTCAT
18758380 TTTTT
1 TTTTT
18758385 AATTAATTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
9 6 0.21
10 22 0.79
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTTCAT
Found at i:18758364 original size:20 final size:19
Alignment explanation
Indices: 18758341--18758384 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
18758331 AATTTAACCC
*
18758341 TTTTTTT-CATTTTTCTTCA
1 TTTTTTTCCATTTTTATT-A
18758360 TTTTTTTCCATTTTTATTA
1 TTTTTTTCCATTTTTATTA
18758379 TTTTTT
1 TTTTTT
18758385 AATTAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTTCCATTTTTATTA
Found at i:18767347 original size:11 final size:12
Alignment explanation
Indices: 18767333--18767392 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 12
18767323 TTCCAAGAAT
18767333 TTTTATT-TTTA
1 TTTTATTATTTA
*
18767344 TTTTATTATGTA
1 TTTTATTATTTA
*
18767356 -TTTATTATATA
1 TTTTATTATTTA
18767367 TTTT-TTATTATGA
1 TTTTATTATT-T-A
*
18767380 TTTTATTTTTTA
1 TTTTATTATTTA
18767392 T
1 T
18767393 ATTTTTATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 21 0.52
12 9 0.22
13 6 0.15
14 4 0.10
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:18767372 original size:25 final size:26
Alignment explanation
Indices: 18767344--18767400 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
18767334 TTTATTTTTA
18767344 TTTTATTATG-TATTTATTATATAT-T
1 TTTTATTATGAT-TTTATTATATATAT
* *
18767369 TTTTATTATGATTTTATTTTTTATAT
1 TTTTATTATGATTTTATTATATATAT
18767395 TTTTAT
1 TTTTAT
18767401 ACCTATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (26 bp):
TTTTATTATGATTTTATTATATATAT
Found at i:18767407 original size:29 final size:29
Alignment explanation
Indices: 18767354--18767412 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
18767344 TTTTATTATG
*
18767354 TATTTATTATATATTTTTTATTATGATTT
1 TATTTATTATATATTTTTTACTATGATTT
*
18767383 TATTT-TT-TATATTTTTATACCTATGTTTT
1 TATTTATTATATATTTTT-TA-CTATGATTT
18767412 T
1 T
18767413 TAATTTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 9 0.35
28 4 0.15
29 13 0.50
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.69
Consensus pattern (29 bp):
TATTTATTATATATTTTTTACTATGATTT
Found at i:18778103 original size:15 final size:15
Alignment explanation
Indices: 18778074--18778102 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18778064 CATCAAATAC
18778074 CAAAAAAAGCAAAAA
1 CAAAAAAAGCAAAAA
18778089 CAAAAAAA-CAAAAA
1 CAAAAAAAGCAAAAA
18778103 AAACAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (15 bp):
CAAAAAAAGCAAAAA
Found at i:18779218 original size:12 final size:14
Alignment explanation
Indices: 18779203--18779234 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
18779193 AAATTTAAAA
18779203 TTTTTATT-AA-TG
1 TTTTTATTGAATTG
18779215 TTTTTATTGAATTG
1 TTTTTATTGAATTG
18779229 TTTTTA
1 TTTTTA
18779235 ATAAATAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 2 0.11
14 8 0.44
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (14 bp):
TTTTTATTGAATTG
Found at i:18780002 original size:13 final size:13
Alignment explanation
Indices: 18779984--18780008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18779974 TTCTACAATT
18779984 TTTTTTCCTTTCC
1 TTTTTTCCTTTCC
18779997 TTTTTTCCTTTC
1 TTTTTTCCTTTC
18780009 AAGTAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTTCCTTTCC
Found at i:18780245 original size:21 final size:21
Alignment explanation
Indices: 18780219--18780262 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
18780209 AAGAATTCTG
18780219 ATACAGAGGATTCATAATATT
1 ATACAGAGGATTCATAATATT
18780240 ATACAGAGGATTCATAATATT
1 ATACAGAGGATTCATAATATT
18780261 AT
1 AT
18780263 GATCAGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (21 bp):
ATACAGAGGATTCATAATATT
Found at i:18782937 original size:13 final size:13
Alignment explanation
Indices: 18782919--18782953 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
18782909 TATATTTTGG
*
18782919 TAAAAATAAAAAA
1 TAAAAAAAAAAAA
18782932 TAAAAAAAAAAAA
1 TAAAAAAAAAAAA
*
18782945 GAAAAAAAA
1 TAAAAAAAA
18782954 CCTCATATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.03, T:0.09
Consensus pattern (13 bp):
TAAAAAAAAAAAA
Found at i:18786519 original size:2 final size:2
Alignment explanation
Indices: 18786512--18786591 Score: 99
Period size: 2 Copynumber: 40.5 Consensus size: 2
18786502 AGATGCGCGG
* *
18786512 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT TT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
18786553 TT AT AT AT TT AT AT AT AT AT AC AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18786592 AGAATATTAC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
1 1 0.01
2 66 0.99
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:18787693 original size:29 final size:29
Alignment explanation
Indices: 18787657--18787718 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
18787647 TGGGACGACC
*
18787657 AAAACTTTAATTATAAAACAGTAAAAAAA
1 AAAACTTTAATTATAAAAAAGTAAAAAAA
* *
18787686 AAAACTTTAATTATAAAAAAGTACAAATA
1 AAAACTTTAATTATAAAAAAGTAAAAAAA
18787715 AAAA
1 AAAA
18787719 TTATCTCATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.24
Consensus pattern (29 bp):
AAAACTTTAATTATAAAAAAGTAAAAAAA
Found at i:18789030 original size:14 final size:14
Alignment explanation
Indices: 18789007--18789061 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
18788997 TTTTTATTTT
18789007 TTATTT-TTAT-TA
1 TTATTTATTATATA
18789019 TGTATTTATTATATA
1 T-TATTTATTATATA
* *
18789034 TTTTTTATTATGATT
1 TTATTTATTAT-ATA
*
18789049 TTATTTTTTATAT
1 TTATTTATTATAT
18789062 TTTTTATACC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 1 0.03
13 5 0.14
14 15 0.43
15 14 0.40
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (14 bp):
TTATTTATTATATA
Found at i:18789044 original size:25 final size:26
Alignment explanation
Indices: 18788998--18789068 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
18788988 TCCAAGAGAT
*
18788998 TTTTATTT-TTTA-TTTTTATTATG-
1 TTTTATTTATATATTTTTTATTATGA
18789021 TATTTA-TTATATATTTTTTATTATGA
1 T-TTTATTTATATATTTTTTATTATGA
*
18789047 TTTTATTTTTTATATTTTTTAT
1 TTTTA-TTTATATATTTTTTAT
18789069 ACCTATGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
23 3 0.08
24 7 0.17
25 15 0.38
26 1 0.03
27 14 0.35
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (26 bp):
TTTTATTTATATATTTTTTATTATGA
Found at i:18789079 original size:29 final size:29
Alignment explanation
Indices: 18789001--18789068 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 29
18788991 AAGAGATTTT
* *
18789001 TATTTTTTATTTTTATTATGTATTTATTATA
1 TATTTTTTATTATGATT-T-TATTTATTATA
18789032 TATTTTTTATTATGATTTTATTT-TT-TA
1 TATTTTTTATTATGATTTTATTTATTATA
18789059 TATTTTTTAT
1 TATTTTTTAT
18789069 ACCTATGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 12 0.34
28 2 0.06
29 5 0.14
30 1 0.03
31 15 0.43
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (29 bp):
TATTTTTTATTATGATTTTATTTATTATA
Found at i:18812339 original size:17 final size:17
Alignment explanation
Indices: 18812317--18812351 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18812307 AATTTTTAAT
18812317 ATATT-AAATGATAAATA
1 ATATTAAAAT-ATAAATA
18812334 ATATTAAAATATAAATA
1 ATATTAAAATATAAATA
18812351 A
1 A
18812352 AAAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
ATATTAAAATATAAATA
Found at i:18812480 original size:27 final size:27
Alignment explanation
Indices: 18812398--18812480 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
18812388 TTAATGAGGT
* *
18812398 TTTTTATTATAAT-TTT-CTTTGTCATCA
1 TTTTTATTATAATATTTAATTT-T-ATTA
** * *
18812425 TTTTTATT-TTGTATTTAAATATATATA
1 TTTTTATTATAATATTTAATTTTAT-TA
18812452 TTTTTATTATAATATTTAATTTTATTA
1 TTTTTATTATAATATTTAATTTTATTA
18812479 TT
1 TT
18812481 ATAATAATTA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
26 4 0.10
27 25 0.60
28 13 0.31
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTTATTATAATATTTAATTTTATTA
Found at i:18812481 original size:21 final size:21
Alignment explanation
Indices: 18812455--18812494 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18812445 ATATATATTT
*
18812455 TTATTATAATATTTAATTTTA
1 TTATTATAATAATTAATTTTA
18812476 TTATTATAATAATTAATTT
1 TTATTATAATAATTAATTT
18812495 GACTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTATAATAATTAATTTTA
Found at i:18813109 original size:18 final size:18
Alignment explanation
Indices: 18813086--18813120 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18813076 TAATATGTAA
*
18813086 AAATTTATTTAAAATTTT
1 AAATTTAATTAAAATTTT
*
18813104 AAATTTAATTAATATTT
1 AAATTTAATTAAAATTT
18813121 ATTTAATAAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATTTAATTAAAATTTT
Found at i:18813161 original size:12 final size:12
Alignment explanation
Indices: 18813130--18813184 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
18813120 TATTTAATAA
18813130 TAAAATTTTTAT
1 TAAAATTTTTAT
* *
18813142 CAATATTTTTAT
1 TAAAATTTTTAT
*
18813154 TAAAA--TTTAC
1 TAAAATTTTTAT
*
18813164 TAAAAATTTTAT
1 TAAAATTTTTAT
*
18813176 TTAAATTTT
1 TAAAATTTT
18813185 GCATATTTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
10 9 0.27
12 24 0.73
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (12 bp):
TAAAATTTTTAT
Found at i:18813273 original size:11 final size:11
Alignment explanation
Indices: 18813259--18813301 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
18813249 TTAAATTAAA
18813259 AAATTTTATCT
1 AAATTTTATCT
*
18813270 AAATTTTACCT
1 AAATTTTATCT
18813281 AAAAAATTTTATCT
1 ---AAATTTTATCT
18813295 AAATTTT
1 AAATTTT
18813302 GTCACGGAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 17 0.63
14 10 0.37
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (11 bp):
AAATTTTATCT
Found at i:18815826 original size:18 final size:19
Alignment explanation
Indices: 18815795--18815840 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
18815785 GTTCTAAAAT
18815795 AATTTTTTGAATA-TCTAA
1 AATTTTTTGAATATTCTAA
*
18815813 AATTTTTT-ATATATTTTAA
1 AATTTTTTGA-ATATTCTAA
18815832 AATCTTTTT
1 AAT-TTTTT
18815841 TAATTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 11 0.46
19 7 0.29
20 5 0.21
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (19 bp):
AATTTTTTGAATATTCTAA
Found at i:18817867 original size:27 final size:28
Alignment explanation
Indices: 18817818--18817885 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
18817808 ATTCTTAAAT
* *
18817818 TTTAAAAATTT-TTAATATGATAT-TTGA
1 TTTAAAAATTTATTAATATAATATAAT-A
*
18817845 TTTATAAATTTATTAAT-TAATATAATA
1 TTTAAAAATTTATTAATATAATATAATA
18817872 TTTAAAAATTTATT
1 TTTAAAAATTTATT
18817886 TATTTGTCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 29 0.83
28 6 0.17
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (28 bp):
TTTAAAAATTTATTAATATAATATAATA
Found at i:18818654 original size:24 final size:24
Alignment explanation
Indices: 18818609--18818656 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18818599 ATATATGTAA
*
18818609 AAAAATAATAATAGTGTTTTTTAG
1 AAAAATAATAATACTGTTTTTTAG
* *
18818633 AAAAATAATAGTACTTTGTTTTTA
1 AAAAATAATAATACTGT-TTTTTA
18818657 AAACACTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (24 bp):
AAAAATAATAATACTGTTTTTTAG
Found at i:18819306 original size:29 final size:29
Alignment explanation
Indices: 18819274--18819356 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 29
18819264 GAATTGTATT
18819274 TAATTTAATTTAATTTTTTAAATAATATA
1 TAATTTAATTTAATTTTTTAAATAATATA
*
18819303 TAATATT-ATTTAA-TTTTTAAATTTAATTTA
1 TAAT-TTAATTTAATTTTTTAAA--TAATATA
*
18819333 -AATTTAAATTAATTTCTTTTAAAT
1 TAATTTAATTTAA-TT-TTTTAAAT
18819357 CGACTCGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
28 10 0.22
29 18 0.40
30 9 0.20
31 1 0.02
32 7 0.16
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (29 bp):
TAATTTAATTTAATTTTTTAAATAATATA
Found at i:18819505 original size:10 final size:10
Alignment explanation
Indices: 18819482--18819523 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
18819472 ATTATTTTTT
18819482 TATAAAAAT-
1 TATAAAAATA
18819491 T-TAAAAATA
1 TATAAAAATA
*
18819500 TATAAAATTA
1 TATAAAAATA
18819510 -ATAAAAATA
1 TATAAAAATA
18819519 TATAA
1 TATAA
18819524 TTTAATATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 7 0.25
9 10 0.36
10 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TATAAAAATA
Found at i:18819568 original size:13 final size:12
Alignment explanation
Indices: 18819549--18819598 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
18819539 TTTTTAAATT
*
18819549 TTTAAATTTTAA
1 TTTAAAATTTAA
18819561 TTTAAAATTTAA
1 TTTAAAATTTAA
*
18819573 -TCAAAATTTAA
1 TTTAAAATTTAA
*
18819584 TGTTTAAATTTAA
1 T-TTAAAATTTAA
18819597 TT
1 TT
18819599 CGAATTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 10 0.31
12 12 0.38
13 10 0.31
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (12 bp):
TTTAAAATTTAA
Found at i:18823075 original size:3 final size:3
Alignment explanation
Indices: 18823067--18823104 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
18823057 TTACTAACCA
18823067 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
18823105 AAACATATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:18825254 original size:11 final size:11
Alignment explanation
Indices: 18825238--18825285 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
18825228 TGCCAATGCC
18825238 TTCTTTTTTTT
1 TTCTTTTTTTT
18825249 TTCTTTTTTTCT
1 TTCTTTTTTT-T
18825261 TT-TTTTTTTT
1 TTCTTTTTTTT
**
18825271 TT-TTGCTTTT
1 TTCTTTTTTTT
18825281 TTCTT
1 TTCTT
18825286 GCTATTTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 11 0.33
11 19 0.58
12 3 0.09
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:18825257 original size:8 final size:8
Alignment explanation
Indices: 18825244--18825282 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
18825234 TGCCTTCTTT
18825244 TTTTTTTC
1 TTTTTTTC
18825252 TTTTTTTC
1 TTTTTTTC
*
18825260 TTTTTTTT
1 TTTTTTTC
18825268 TTTTTTTGC
1 TTTTTTT-C
18825277 TTTTTT
1 TTTTTT
18825283 CTTGCTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.90
Consensus pattern (8 bp):
TTTTTTTC
Found at i:18825262 original size:19 final size:18
Alignment explanation
Indices: 18825238--18825274 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
18825228 TGCCAATGCC
18825238 TTCTTTTTTTTTTCTTTTT
1 TTCTTTTTTTTTT-TTTTT
18825257 TTCTTTTTTTTTTTTTTT
1 TTCTTTTTTTTTTTTTTT
18825275 GCTTTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (18 bp):
TTCTTTTTTTTTTTTTTT
Found at i:18825265 original size:17 final size:17
Alignment explanation
Indices: 18825242--18825282 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
18825232 AATGCCTTCT
*
18825242 TTTTTTTTTCTTTTTTTC
1 TTTTTTTTT-TTTTTTGC
18825260 TTTTTTTTTTTTTTTGC
1 TTTTTTTTTTTTTTTGC
18825277 TTTTTT
1 TTTTTT
18825283 CTTGCTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.90
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTGC
Found at i:18825282 original size:1 final size:1
Alignment explanation
Indices: 18825241--18825274 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
18825231 CAATGCCTTC
* *
18825241 TTTTTTTTTTCTTTTTTTCTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18825275 GCTTTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:18826708 original size:178 final size:179
Alignment explanation
Indices: 18826408--18826762 Score: 667
Period size: 178 Copynumber: 2.0 Consensus size: 179
18826398 ACTTATTATA
18826408 ACTTTCCAAAAGACTATCTAATTCAAGTTATAATTGATATTTTTTGTTATTCCCCATGCCTAGAT
1 ACTTTCCAAAAGACTATCTAATTCAAGTTATAATTGATATTTTTTGTTATTCCCCATGCCTAGAT
18826473 GAGCATGTCAGGAAAATGTAGCCTTCCATGGATGGTTTCTTCATGCATGTAAAGCAACTCCTATA
66 GAGCATGTCAGGAAAATGTAGCCTTCCATGGATGGTTTCTTCATGCATGTAAAGCAACTCCTATA
*
18826538 CTAATATCACCCATACGAGACTCCAATATTATCCAGTAAGATGCTGCTG
131 CTAATATCACCCATACGAGACTCCAATATTATCCAATAAGATGCTGCTG
* *
18826587 ACTTTCCAAAAGACTGTCTAATTCAAGTTATAATTGAT-TTTTTTGTTCTTCCCCATGCCTAGAT
1 ACTTTCCAAAAGACTATCTAATTCAAGTTATAATTGATATTTTTTGTTATTCCCCATGCCTAGAT
18826651 GAGCATGTCAGGAAAATGTAGCCTTCCATGGATGGTTTCTTCATGCATGTAAAGCAACTCCTATA
66 GAGCATGTCAGGAAAATGTAGCCTTCCATGGATGGTTTCTTCATGCATGTAAAGCAACTCCTATA
*
18826716 TTAATATCACCCATACGAGACTCCAATATTATCCAATAAGATGCTGC
131 CTAATATCACCCATACGAGACTCCAATATTATCCAATAAGATGCTGC
18826763 AGGGTTTTGG
Statistics
Matches: 172, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
178 135 0.78
179 37 0.22
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (179 bp):
ACTTTCCAAAAGACTATCTAATTCAAGTTATAATTGATATTTTTTGTTATTCCCCATGCCTAGAT
GAGCATGTCAGGAAAATGTAGCCTTCCATGGATGGTTTCTTCATGCATGTAAAGCAACTCCTATA
CTAATATCACCCATACGAGACTCCAATATTATCCAATAAGATGCTGCTG
Found at i:18830252 original size:18 final size:18
Alignment explanation
Indices: 18830229--18830280 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
18830219 ATTTTTATTT
18830229 TTAATTTATATATATGAA
1 TTAATTTATATATATGAA
*
18830247 TTAATTTACATATAT--A
1 TTAATTTATATATATGAA
*
18830263 --AATATATATATATGAA
1 TTAATTTATATATATGAA
18830279 TT
1 TT
18830281 CGGATTGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
14 11 0.41
16 2 0.07
18 14 0.52
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (18 bp):
TTAATTTATATATATGAA
Found at i:18832917 original size:25 final size:25
Alignment explanation
Indices: 18832900--18832954 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 25
18832890 ATTTAATTAT
18832900 ATATTTTATATTTATATTAAAAATA
1 ATATTTTATATTTATATTAAAAATA
18832925 ATATTTTATA--T-T-TTAAAAATA
1 ATATTTTATATTTATATTAAAAATA
18832946 ATATTTTAT
1 ATATTTTAT
18832955 TAATTTCAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 18 0.60
22 1 0.03
23 1 0.03
25 10 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATTTTATATTTATATTAAAAATA
Found at i:18833408 original size:38 final size:38
Alignment explanation
Indices: 18833365--18833438 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
18833355 AATAAAAAAA
18833365 TAATATGACTCAAATTTTTAATAATAATTAATTTAGGT
1 TAATATGACTCAAATTTTTAATAATAATTAATTTAGGT
*
18833403 TAATATGACTTAAATTTTTAATAATAATTAATTTAG
1 TAATATGACTCAAATTTTTAATAATAATTAATTTAG
18833439 ATTTAATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (38 bp):
TAATATGACTCAAATTTTTAATAATAATTAATTTAGGT
Found at i:18833427 original size:21 final size:21
Alignment explanation
Indices: 18833363--18833428 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
18833353 AGAATAAAAA
*
18833363 AATAATATGACTCAAATTTTT
1 AATAATATGACTTAAATTTTT
**
18833384 AATAATA--A-TT-AATTTAG
1 AATAATATGACTTAAATTTTT
**
18833401 GTTAATATGACTTAAATTTTT
1 AATAATATGACTTAAATTTTT
18833422 AATAATA
1 AATAATA
18833429 ATTAATTTAG
Statistics
Matches: 32, Mismatches: 9, Indels: 8
0.65 0.18 0.16
Matches are distributed among these distances:
17 10 0.31
18 1 0.03
19 2 0.06
20 2 0.06
21 17 0.53
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (21 bp):
AATAATATGACTTAAATTTTT
Found at i:18833443 original size:21 final size:20
Alignment explanation
Indices: 18833381--18833447 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 20
18833371 GACTCAAATT
18833381 TTTAATAATAATTAATTTAG
1 TTTAATAATAATTAATTTAG
* * *
18833401 GTTAAT-ATGACTTAAATT--
1 TTTAATAAT-AATTAATTTAG
18833419 TTTAATAATAATTAATTTAG
1 TTTAATAATAATTAATTTAG
18833439 ATTTAATAA
1 -TTTAATAA
18833448 AATAAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
18 12 0.33
19 4 0.11
20 12 0.33
21 8 0.22
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (20 bp):
TTTAATAATAATTAATTTAG
Found at i:18834081 original size:10 final size:10
Alignment explanation
Indices: 18834066--18834095 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
18834056 GAGACTCACC
18834066 GCTGTAAACA
1 GCTGTAAACA
18834076 GCTGTAAACA
1 GCTGTAAACA
*
18834086 GCTGTCAACA
1 GCTGTAAACA
18834096 TGTTATTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (10 bp):
GCTGTAAACA
Found at i:18840928 original size:25 final size:28
Alignment explanation
Indices: 18840872--18840952 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 28
18840862 TAAAAGATTC
18840872 AATTAAATAAAAATAAATATTTAAAATCT
1 AATTAAATAAAAATAAATATTTAAAA-CT
* * *
18840901 AATTAAATGAAAATAAATTTTTAATAATT
1 AATTAAATAAAAATAAATATTTAA-AACT
*
18840930 AAATTAAATGAAAATAAATATTT
1 -AATTAAATAAAAATAAATATTT
18840953 GGTTGTTCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 23 0.50
30 23 0.50
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.37
Consensus pattern (28 bp):
AATTAAATAAAAATAAATATTTAAAACT
Found at i:18840966 original size:30 final size:30
Alignment explanation
Indices: 18840872--18840952 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 30
18840862 TAAAAGATTC
*
18840872 AATTAAATAAAAATAAATATTTAA-AATCT-
1 AATTAAATGAAAATAAATATTTAATAAT-TA
*
18840901 AATTAAATGAAAATAAATTTTTAATAATTA
1 AATTAAATGAAAATAAATATTTAATAATTA
18840931 AATTAAATGAAAATAAATATTT
1 AATTAAATGAAAATAAATATTT
18840953 GGTTGTTCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
29 23 0.49
30 24 0.51
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.37
Consensus pattern (30 bp):
AATTAAATGAAAATAAATATTTAATAATTA
Found at i:18854698 original size:2 final size:2
Alignment explanation
Indices: 18854691--18854726 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
18854681 ACCTTTGATT
18854691 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
18854727 ATATATGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:18856346 original size:31 final size:31
Alignment explanation
Indices: 18856311--18856372 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
18856301 TGCTTGTAGC
* *
18856311 ACAAGTTCGAAAGGGAACGAAGAACTGAACT
1 ACAAGTTCGAAAGAGAACAAAGAACTGAACT
* *
18856342 ACAAGTTCGTATGAGAACAAAGAACTGAACT
1 ACAAGTTCGAAAGAGAACAAAGAACTGAACT
18856373 TTAGAAATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.16
Consensus pattern (31 bp):
ACAAGTTCGAAAGAGAACAAAGAACTGAACT
Found at i:18857659 original size:14 final size:14
Alignment explanation
Indices: 18857640--18857670 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
18857630 TTAAACGTAT
18857640 TTGCATGATCTTAC
1 TTGCATGATCTTAC
18857654 TTGCATGATCTTAC
1 TTGCATGATCTTAC
18857668 TTG
1 TTG
18857671 AAATCTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (14 bp):
TTGCATGATCTTAC
Found at i:18865938 original size:156 final size:156
Alignment explanation
Indices: 18865654--18865982 Score: 613
Period size: 156 Copynumber: 2.1 Consensus size: 156
18865644 TTGAAAGTTT
18865654 TGCATGGTAGAGCTGGTATGACCTTATGATTTCGTTGTTTTTCTGTTTATTGAAGGAAAAGTACT
1 TGCATGGTAGAGCTGGTATGACCTTATGATTTCGTTGTTTTTCTGTTTATTGAAGGAAAAGTACT
*
18865719 TAAAACTCATGGCTTTTGATTGTTTCTTGACAATTTATGGAAGTTTCATTTATTTAGGGGGCTAA
66 TAAAACTCATGGCTTTTGATTGTTACTTGACAATTTATGGAAGTTTCATTTATTTAGGGGGCTAA
18865784 CTGTCTCCCTGATATTACTAGGGGAG
131 CTGTCTCCCTGATATTACTAGGGGAG
*
18865810 TGCATGGTAGAGCTGGTGTGACCTTATGATTTCGTTGTTTTTCTGTTTATTGAAGGAAAAGTACT
1 TGCATGGTAGAGCTGGTATGACCTTATGATTTCGTTGTTTTTCTGTTTATTGAAGGAAAAGTACT
18865875 TAAAACTCATGGCTTTTGATTGTTACTTGACAATTTATGGAAGTTTCATTTATTTAGGGGGCTAA
66 TAAAACTCATGGCTTTTGATTGTTACTTGACAATTTATGGAAGTTTCATTTATTTAGGGGGCTAA
18865940 CTGTCTCCCTGATATTACTAGGGGAG
131 CTGTCTCCCTGATATTACTAGGGGAG
* *
18865966 TGGATGCTAGAAGCTGG
1 TGCATGGTAG-AGCTGG
18865983 GGCACTTGTT
Statistics
Matches: 168, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
156 162 0.96
157 6 0.04
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (156 bp):
TGCATGGTAGAGCTGGTATGACCTTATGATTTCGTTGTTTTTCTGTTTATTGAAGGAAAAGTACT
TAAAACTCATGGCTTTTGATTGTTACTTGACAATTTATGGAAGTTTCATTTATTTAGGGGGCTAA
CTGTCTCCCTGATATTACTAGGGGAG
Found at i:18871456 original size:21 final size:21
Alignment explanation
Indices: 18871418--18871469 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
18871408 CTCGAAATTA
18871418 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTT-AAAT
18871440 ATAAAATATTA-TTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
18871460 ATAAATATAT
1 ATAAA-ATAT
18871470 ATAAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.31
21 9 0.31
22 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:18871465 original size:19 final size:21
Alignment explanation
Indices: 18871417--18871467 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
18871407 ACTCGAAATT
18871417 AATA-AAATATTATTTTTTAA
1 AATATAAATATTATTTTTTAA
18871437 AATATAAAATATTA-TTTTT-A
1 AATAT-AAATATTATTTTTTAA
18871457 AATATAAATAT
1 AATATAAATAT
18871468 ATATAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.21
20 10 0.34
21 5 0.17
22 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATATAAATATTATTTTTTAA
Found at i:18873123 original size:24 final size:24
Alignment explanation
Indices: 18873095--18873150 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
18873085 CTTTATCAAT
* *
18873095 ATTGTTTAATATTGATATATTGTG
1 ATTGTATAATATTGAGATATTGTG
* *
18873119 GTTGTATAATCTTGAGATATTGTG
1 ATTGTATAATATTGAGATATTGTG
18873143 ATTGTATA
1 ATTGTATA
18873151 TCTCTAATTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.50
Consensus pattern (24 bp):
ATTGTATAATATTGAGATATTGTG
Found at i:18878023 original size:20 final size:20
Alignment explanation
Indices: 18877998--18878036 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18877988 TTTGGAGGTT
*
18877998 TTTCATGTAAATTGCTTGTG
1 TTTCATGTAAATTACTTGTG
*
18878018 TTTCATGTTAATTACTTGT
1 TTTCATGTAAATTACTTGT
18878037 ATTTTTATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (20 bp):
TTTCATGTAAATTACTTGTG
Found at i:18878729 original size:2 final size:2
Alignment explanation
Indices: 18878724--18878782 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
18878714 ATACATTTAC
* * *
18878724 AT AT AT AT AT AT AT AT AT AT AT AT AC AT TT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18878766 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
18878783 AGTAAGAAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18878748 original size:32 final size:32
Alignment explanation
Indices: 18878711--18878780 Score: 140
Period size: 32 Copynumber: 2.2 Consensus size: 32
18878701 GTAAGGAAGG
18878711 TATATACATTTACATATATATATATATATATA
1 TATATACATTTACATATATATATATATATATA
18878743 TATATACATTTACATATATATATATATATATA
1 TATATACATTTACATATATATATATATATATA
18878775 TATATA
1 TATATA
18878781 TAAGTAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (32 bp):
TATATACATTTACATATATATATATATATATA
Found at i:18888153 original size:14 final size:15
Alignment explanation
Indices: 18888126--18888160 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
18888116 AAATTATCCA
18888126 AAAAATATATTTATT
1 AAAAATATATTTATT
*
18888141 ACAAATA-ATTTATT
1 AAAAATATATTTATT
18888155 AAAAAT
1 AAAAAT
18888161 TTTATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAAATATATTTATT
Found at i:18891336 original size:13 final size:13
Alignment explanation
Indices: 18891320--18891344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18891310 AAAAAAAAAA
18891320 AAAAAAAAAATCC
1 AAAAAAAAAATCC
18891333 AAAAAAAAAATC
1 AAAAAAAAAATC
18891345 TTGTAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAAAAAATCC
Found at i:18891342 original size:1 final size:1
Alignment explanation
Indices: 18891305--18891329 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
18891295 TTGCCTGATC
18891305 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
18891330 TCCAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18891438 original size:38 final size:38
Alignment explanation
Indices: 18891387--18891506 Score: 131
Period size: 38 Copynumber: 3.5 Consensus size: 38
18891377 CTGTCTACCA
18891387 GTTGATATTGAAATGTACAGTACTTCCTTTCCATGTTG
1 GTTGATATTGAAATGTACAGTACTTCCTTTCCATGTTG
18891425 GTTGATATTGAAATGTACCA-TA---------C---TTG
1 GTTGATATTGAAATGTA-CAGTACTTCCTTTCCATGTTG
*
18891451 ATTGATATTGAAATGTACAGTACTTCCTTTCCATGTTG
1 GTTGATATTGAAATGTACAGTACTTCCTTTCCATGTTG
18891489 GTTGATATTGAAATGTAC
1 GTTGATATTGAAATGTAC
18891507 CATACTTGGT
Statistics
Matches: 66, Mismatches: 2, Indels: 28
0.69 0.02 0.29
Matches are distributed among these distances:
25 2 0.03
26 21 0.32
29 1 0.02
35 1 0.02
38 39 0.59
39 2 0.03
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (38 bp):
GTTGATATTGAAATGTACAGTACTTCCTTTCCATGTTG
Found at i:18891489 original size:64 final size:64
Alignment explanation
Indices: 18891388--18891549 Score: 299
Period size: 64 Copynumber: 2.5 Consensus size: 64
18891378 TGTCTACCAG
18891388 TTGATATTGAAATGTACAGTACTTCCTTTCCATGTTGGTTGATATTGAAATGTACCATACTTGA
1 TTGATATTGAAATGTACAGTACTTCCTTTCCATGTTGGTTGATATTGAAATGTACCATACTTGA
*
18891452 TTGATATTGAAATGTACAGTACTTCCTTTCCATGTTGGTTGATATTGAAATGTACCATACTTGG
1 TTGATATTGAAATGTACAGTACTTCCTTTCCATGTTGGTTGATATTGAAATGTACCATACTTGA
18891516 TTGATATTGAAATGTACCA-TACTTCCTTTCCATG
1 TTGATATTGAAATGTA-CAGTACTTCCTTTCCATG
18891550 ATTTGGAATG
Statistics
Matches: 96, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
64 94 0.98
65 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (64 bp):
TTGATATTGAAATGTACAGTACTTCCTTTCCATGTTGGTTGATATTGAAATGTACCATACTTGA
Found at i:18891516 original size:26 final size:26
Alignment explanation
Indices: 18891486--18891539 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
18891476 CCTTTCCATG
18891486 TTGGTTGATATTGAAATGTACCATAC
1 TTGGTTGATATTGAAATGTACCATAC
18891512 TTGGTTGATATTGAAATGTACCATAC
1 TTGGTTGATATTGAAATGTACCATAC
18891538 TT
1 TT
18891540 CCTTTCCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (26 bp):
TTGGTTGATATTGAAATGTACCATAC
Found at i:18892763 original size:33 final size:33
Alignment explanation
Indices: 18892726--18892791 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
18892716 TTCTTCTCTC
18892726 CTTATCCTTTATACATTGTTTAAAGGAAATTTA
1 CTTATCCTTTATACATTGTTTAAAGGAAATTTA
*
18892759 CTTATCCTTTATACATTGTTTGAAGGAAATTTA
1 CTTATCCTTTATACATTGTTTAAAGGAAATTTA
18892792 AGGGGTGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (33 bp):
CTTATCCTTTATACATTGTTTAAAGGAAATTTA
Found at i:18894814 original size:22 final size:23
Alignment explanation
Indices: 18894784--18894830 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
18894774 ATCTTAAGGT
18894784 TTTAGTAATCATGACCAATTTTG
1 TTTAGTAATCATGACCAATTTTG
*
18894807 TTTA-TAATCATGACTAATTTTG
1 TTTAGTAATCATGACCAATTTTG
18894829 TT
1 TT
18894831 CATTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (23 bp):
TTTAGTAATCATGACCAATTTTG
Found at i:18896489 original size:16 final size:17
Alignment explanation
Indices: 18896454--18896492 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
18896444 TACAATTATA
*
18896454 TTATTAATTATTATAAT
1 TTATTAATTAATATAAT
*
18896471 TTATTAA-TAATATATT
1 TTATTAATTAATATAAT
18896487 TTATTA
1 TTATTA
18896493 TTTTAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATTAATTAATATAAT
Found at i:18897529 original size:19 final size:19
Alignment explanation
Indices: 18897486--18897537 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
18897476 CATTTTTATT
* *
18897486 TTTAATTATTTTATTTTTTTA
1 TTTAATTA-TTT-TTTCTATA
18897507 TTTAATTATTTTTTCTATA
1 TTTAATTATTTTTTCTATA
18897526 TTTAATTATTTT
1 TTTAATTATTTT
18897538 AATTTGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 18 0.62
20 3 0.10
21 8 0.28
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTAATTATTTTTTCTATA
Found at i:18897641 original size:18 final size:19
Alignment explanation
Indices: 18897603--18897643 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
18897593 ATAAATTTTC
* *
18897603 AAATTTGAAGCATATATAA
1 AAATTTGAAGAATAAATAA
18897622 AAATTTGAA-AATAAATAA
1 AAATTTGAAGAATAAATAA
18897640 AAAT
1 AAAT
18897644 ATTCCAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (19 bp):
AAATTTGAAGAATAAATAA
Found at i:18897742 original size:21 final size:21
Alignment explanation
Indices: 18897716--18897767 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
18897706 AATATTTTTT
18897716 AAAAATTTTACCTAAATTATG
1 AAAAATTTTACCTAAATTATG
18897737 AAAAATTTTACCTAAATTATG
1 AAAAATTTTACCTAAATTATG
18897758 AAAAATTTTA
1 AAAAATTTTA
18897768 GAAAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (21 bp):
AAAAATTTTACCTAAATTATG
Found at i:18898803 original size:16 final size:15
Alignment explanation
Indices: 18898768--18898820 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
18898758 AAATAATTAA
18898768 TTATTTTTATTAACATT
1 TTATTTTTATT-A-ATT
18898785 TTAGTTTTTATTAATT
1 TTA-TTTTTATTAATT
*
18898801 TTATATATTATTAATT
1 TTAT-TTTTATTAATT
18898817 TTAT
1 TTAT
18898821 AATTATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
15 1 0.03
16 20 0.61
17 4 0.12
18 8 0.24
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (15 bp):
TTATTTTTATTAATT
Found at i:18898834 original size:18 final size:16
Alignment explanation
Indices: 18898792--18898827 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
18898782 ATTTTAGTTT
18898792 TTATTAATTTTATATA
1 TTATTAATTTTATATA
18898808 TTATTAATTTTATA-A
1 TTATTAATTTTATATA
18898823 TTATT
1 TTATT
18898828 TTTAATTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTAATTTTATATA
Found at i:18899042 original size:19 final size:20
Alignment explanation
Indices: 18899003--18899040 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18898993 TTTTATTTGT
18899003 ATTTTAATTTTTTTAGTTTA
1 ATTTTAATTTTTTTAGTTTA
*
18899023 ATTTTTATTTTTTTAGTT
1 ATTTTAATTTTTTTAGTT
18899041 AAAAGAGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
ATTTTAATTTTTTTAGTTTA
Found at i:18899777 original size:24 final size:24
Alignment explanation
Indices: 18899690--18899851 Score: 130
Period size: 24 Copynumber: 7.0 Consensus size: 24
18899680 ACTTATTTAC
18899690 TTAATATATATT-TTTGCATG---A
1 TTAATATAT-TTATTTGCATGATTA
***
18899711 TTAATATATTTATTTATGTGATTTA
1 TTAATATATTTATTTGCATGA-TTA
*
18899736 TT-A-ATA-TT-TTTACATGATTA
1 TTAATATATTTATTTGCATGATTA
*
18899756 TTAATATATTTGTTTGCATGATTA
1 TTAATATATTTATTTGCATGATTA
*
18899780 -T-ATTTAATTT-TATTGCATGATTA
1 TTAATAT-ATTTAT-TTGCATGATTA
* * *
18899803 TTAATATATTTAATTACTTGATTA
1 TTAATATATTTATTTGCATGATTA
18899827 TTAATATATTTATTTGCATGATTA
1 TTAATATATTTATTTGCATGATTA
18899851 T
1 T
18899852 ATATTTAATT
Statistics
Matches: 113, Mismatches: 14, Indels: 25
0.74 0.09 0.16
Matches are distributed among these distances:
20 7 0.06
21 22 0.19
22 9 0.08
23 21 0.19
24 48 0.42
25 6 0.05
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.56
Consensus pattern (24 bp):
TTAATATATTTATTTGCATGATTA
Found at i:18899832 original size:71 final size:64
Alignment explanation
Indices: 18899690--18899861 Score: 195
Period size: 71 Copynumber: 2.5 Consensus size: 64
18899680 ACTTATTTAC
*
18899690 TTAATATATATTTTTGCATGATTAATATATTTATTTATGTGATTTATTAATATTTTTACATGATT
1 TTAATATAT-TTTTTGCATGATT-ATATATTAATTTATGTGATTTATTAATATTTTTACATGATT
18899755 A
64 A
18899756 TTAATATATTTGTTTGCATGATTATAT-TTAATTTTAT-TGCATGATTATTAATATATTTAATTA
1 TTAATATATTT-TTTGCATGATTATATATTAA-TTTATGTG-AT--TTATT-A-ATATTT--TTA
*
18899819 CTTGATTA
57 CATGATTA
18899827 TTAATATATTTATTTGCATGATTATATATTTAATT
1 TTAATATATTT-TTTGCATGATTATATA-TTAATT
18899862 GCATGTTTGT
Statistics
Matches: 92, Mismatches: 3, Indels: 16
0.83 0.03 0.14
Matches are distributed among these distances:
64 5 0.05
65 13 0.14
66 20 0.22
67 5 0.05
68 1 0.01
69 6 0.07
71 36 0.39
72 2 0.02
73 4 0.04
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (64 bp):
TTAATATATTTTTTGCATGATTATATATTAATTTATGTGATTTATTAATATTTTTACATGATTA
Found at i:18899839 original size:47 final size:45
Alignment explanation
Indices: 18899694--18899851 Score: 148
Period size: 47 Copynumber: 3.5 Consensus size: 45
18899684 ATTTACTTAA
18899694 TATATATTTTTGCATG---ATTAATATATTTATTTA-TGTGATTTAT
1 TATATATTTTTGCATGATTATTAATATATTTATTTACT-TGA-TTAT
* * * *
18899737 TA-ATATTTTTACATGATTATTAATATATTTGTTTGCATGATTA-
1 TATATATTTTTGCATGATTATTAATATATTTATTTACTTGATTAT
* *
18899780 TATTTAATTTTATTGCATGATTATTAATATATTTAATTACTTGATTAT
1 TATAT-A-TTT-TTGCATGATTATTAATATATTTATTTACTTGATTAT
18899828 TAATATATTTATTTGCATGATTAT
1 T-ATATA-TT-TTTGCATGATTAT
18899852 ATATTTAATT
Statistics
Matches: 93, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
42 12 0.13
43 4 0.04
44 4 0.04
45 19 0.20
46 3 0.03
47 30 0.32
48 17 0.18
49 4 0.04
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (45 bp):
TATATATTTTTGCATGATTATTAATATATTTATTTACTTGATTAT
Found at i:18899902 original size:55 final size:55
Alignment explanation
Indices: 18899836--18900090 Score: 327
Period size: 55 Copynumber: 4.7 Consensus size: 55
18899826 ATTAATATAT
* * *
18899836 TTATTTGCATGATTATATATTTAATTGCATGTTTGTTGGCATGATTTATATATTA
1 TTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGATTTATATATTA
* *
18899891 TTATTTGCATGATTATATATTTAATTGCATATTTTTTTGCATGATTTATGTATTA
1 TTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGATTTATATATTA
** * * *
18899946 TTGGTTGCATAATTATATATTTAATTGCATATTTATTTGCATGGTTTATATATTT
1 TTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGATTTATATATTA
* * * *
18900001 TTATTTGTATGATTATATATTTAATTGCATGTTTATTTG-AGTGA-TT-TACATTG
1 TTATTTGCATGATTATATATTTAATTGCATATTTATTTGCA-TGATTTATATATTA
* * *
18900054 TTAATTGCATGATTATATATTTAATTACATAATTATT
1 TTATTTGCATGATTATATATTTAATTGCATATTTATT
18900091 AATTAATCTA
Statistics
Matches: 175, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 37 0.21
54 3 0.02
55 135 0.77
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (55 bp):
TTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGATTTATATATTA
Found at i:18900019 original size:22 final size:23
Alignment explanation
Indices: 18899977--18900022 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
18899967 TAATTGCATA
*
18899977 TTTATTTGCATGGTTTATATATT
1 TTTATTTGCATGGATTATATATT
*
18900000 TTTATTTGTAT-GATTATATATT
1 TTTATTTGCATGGATTATATATT
18900022 T
1 T
18900023 AATTGCATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.63
Consensus pattern (23 bp):
TTTATTTGCATGGATTATATATT
Found at i:18901495 original size:20 final size:20
Alignment explanation
Indices: 18901472--18901512 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
18901462 TTGTCATAAC
18901472 ATATAGATTTGAAAATCTAT
1 ATATAGATTTGAAAATCTAT
18901492 ATATAGATTTGAAAATCTAT
1 ATATAGATTTGAAAATCTAT
18901512 A
1 A
18901513 GCTAGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (20 bp):
ATATAGATTTGAAAATCTAT
Found at i:18901518 original size:20 final size:20
Alignment explanation
Indices: 18901474--18901521 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
18901464 GTCATAACAT
*
18901474 ATAGATTTGAAAATCTATAT
1 ATAGATTTGAAAATCTATAG
18901494 ATAGATTTGAAAATCTATAG
1 ATAGATTTGAAAATCTATAG
*
18901514 CTAGATTT
1 ATAGATTT
18901522 AACAAATGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (20 bp):
ATAGATTTGAAAATCTATAG
Found at i:18901690 original size:79 final size:79
Alignment explanation
Indices: 18901559--18901717 Score: 291
Period size: 79 Copynumber: 2.0 Consensus size: 79
18901549 TTTTTTGCTA
*
18901559 GGTGTGATTGGTCACCTAAGGAATCTATCCTTTTAAAGAACTCCTAAGCTTGATTAAGGGTACTT
1 GGTGTGATTGGTCACCTAAAGAATCTATCCTTTTAAAGAACTCCTAAGCTTGATTAAGGGTACTT
18901624 AAAAGAATAAGTTT
66 AAAAGAATAAGTTT
*
18901638 GGTGTGATTGGTCACCTAAAGAATCTATCCTTTTAAAGAACTCCTAAGCTTGATTAAGGGTCCTT
1 GGTGTGATTGGTCACCTAAAGAATCTATCCTTTTAAAGAACTCCTAAGCTTGATTAAGGGTACTT
*
18901703 AAAAGAATAGGTTT
66 AAAAGAATAAGTTT
18901717 G
1 G
18901718 AATCTACTAA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (79 bp):
GGTGTGATTGGTCACCTAAAGAATCTATCCTTTTAAAGAACTCCTAAGCTTGATTAAGGGTACTT
AAAAGAATAAGTTT
Found at i:18902472 original size:10 final size:10
Alignment explanation
Indices: 18902457--18902488 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
18902447 ATTTCAAAAA
18902457 TTTTATATTT
1 TTTTATATTT
*
18902467 TTTTATGTTT
1 TTTTATATTT
18902477 TTTTATATTT
1 TTTTATATTT
18902487 TT
1 TT
18902489 AATTTTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (10 bp):
TTTTATATTT
Found at i:18902495 original size:18 final size:20
Alignment explanation
Indices: 18902457--18902496 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
18902447 ATTTCAAAAA
*
18902457 TTTTATATTTTTTTATGTTT
1 TTTTATATTTTTTAATGTTT
18902477 TTTTATA-TTTTTAAT-TTT
1 TTTTATATTTTTTAATGTTT
18902495 TT
1 TT
18902497 GATTTGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 7 0.37
20 7 0.37
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (20 bp):
TTTTATATTTTTTAATGTTT
Found at i:18903842 original size:41 final size:41
Alignment explanation
Indices: 18903764--18904048 Score: 233
Period size: 41 Copynumber: 7.0 Consensus size: 41
18903754 AAAAAAGCAA
* * * * *
18903764 AGCTCCTCT-AACAGAGGTAACAGAACTGTGGAAAATAAAT
1 AGCTCCTCTGAATAAAGGCAACAGAACTTTAGAAAATAAAT
* * * *
18903804 AGCTTCTCTGAATAAAGGTAACAAAACTTTAGAGAATAAAT
1 AGCTCCTCTGAATAAAGGCAACAGAACTTTAGAAAATAAAT
* * *
18903845 CA-CTCCTCTGAATAGAGGCAACAGAACTTTGGAAAGTAAAT
1 -AGCTCCTCTGAATAAAGGCAACAGAACTTTAGAAAATAAAT
* *
18903886 -GACTCCTCTGAATAAAGGCAACAAAACTTCA-AAAATAAAT
1 AG-CTCCTCTGAATAAAGGCAACAGAACTTTAGAAAATAAAT
* *
18903926 GGCTCCTCTGAATAGAGGCAACAGAACTTT-GAAAAATAAAT
1 AGCTCCTCTGAATAAAGGCAACAGAACTTTAG-AAAATAAAT
* * * *
18903967 GGCTCATCTGAATAGAGGCAAC-GAACTTTGAAAAAATAAAT
1 AGCTCCTCTGAATAAAGGCAACAGAACTTT-AGAAAATAAAT
* * * ** * *
18904008 GGCTCTTTTGAATTGAGGCAA-TGAACTTTGACAAAATAAAT
1 AGCTCCTCTGAATAAAGGCAACAGAACTTT-AGAAAATAAAT
18904049 GGTTTTTTGA
Statistics
Matches: 207, Mismatches: 28, Indels: 19
0.81 0.11 0.07
Matches are distributed among these distances:
40 48 0.23
41 158 0.76
42 1 0.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.24
Consensus pattern (41 bp):
AGCTCCTCTGAATAAAGGCAACAGAACTTTAGAAAATAAAT
Found at i:18903954 original size:81 final size:81
Alignment explanation
Indices: 18903765--18904049 Score: 308
Period size: 82 Copynumber: 3.5 Consensus size: 81
18903755 AAAAAGCAAA
* * * * *
18903765 GCTCCTCT-AACAGAGGTAACAGAACTGTGGAAAATAAAT-AGCTTCTCTGAATAAAGGTAACAA
1 GCTCCTCTGAATAGAGGCAACAGAACTTTGGAAAATAAATGA-CTCCTCTGAATAAAGGCAACAA
* * *
18903828 AACTTTAGAGAATAAATC
65 AAC-TTAAAAAATAAATG
* *
18903846 ACTCCTCTGAATAGAGGCAACAGAACTTTGGAAAGTAAATGACTCCTCTGAATAAAGGCAACAAA
1 GCTCCTCTGAATAGAGGCAACAGAACTTTGGAAAATAAATGACTCCTCTGAATAAAGGCAACAAA
*
18903911 ACTTCAAAAATAAATG
66 ACTTAAAAAATAAATG
* * * * *
18903927 GCTCCTCTGAATAGAGGCAACAGAACTTTGAAAAATAAATGGCTCATCTGAATAGAGGCAAC-GA
1 GCTCCTCTGAATAGAGGCAACAGAACTTTGGAAAATAAATGACTCCTCTGAATAAAGGCAACAAA
18903991 ACTTTGAAAAAATAAATG
66 AC-TT-AAAAAATAAATG
* * * * *
18904009 GCTCTTTTGAATTGAGGCAA-TGAACTTTGACAAAATAAATG
1 GCTCCTCTGAATAGAGGCAACAGAACTTTG-GAAAATAAATG
18904050 GTTTTTTGAC
Statistics
Matches: 175, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
80 3 0.02
81 83 0.47
82 88 0.50
83 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (81 bp):
GCTCCTCTGAATAGAGGCAACAGAACTTTGGAAAATAAATGACTCCTCTGAATAAAGGCAACAAA
ACTTAAAAAATAAATG
Found at i:18904073 original size:40 final size:41
Alignment explanation
Indices: 18903916--18904064 Score: 126
Period size: 41 Copynumber: 3.6 Consensus size: 41
18903906 ACAAAACTTC
* * * *
18903916 AAAAATAAATGGCTCCTCTG-AATAGAGGCAACAGAACTTTG-
1 AAAAATAAATGGCTCTTTTGAAAT-CAGGCAA-TGAACTTTGA
* * * *
18903957 AAAAATAAATGGCTCATCTG-AATAGAGGCAACGAACTTTGA
1 AAAAATAAATGGCTCTTTTGAAAT-CAGGCAATGAACTTTGA
* *
18903998 AAAAATAAATGGCTCTTTTGAATTGAGGCAATGAACTTTGA
1 AAAAATAAATGGCTCTTTTGAAATCAGGCAATGAACTTTGA
* *
18904039 CAAAATAAATGG-TTTTTTGACAATCA
1 AAAAATAAATGGCTCTTTTGA-AATCA
18904065 TGACTGAACG
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
40 15 0.16
41 78 0.82
42 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (41 bp):
AAAAATAAATGGCTCTTTTGAAATCAGGCAATGAACTTTGA
Found at i:18905463 original size:23 final size:21
Alignment explanation
Indices: 18905423--18905473 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
18905413 TCTTGAGTTT
*
18905423 TTTTTTTTTCTTTTTTTTAAA
1 TTTTTTTCTCTTTTTTTTAAA
*
18905444 TTTTTTTCTCTTTTAATTTTTAA
1 TTTTTTTCTCTTTT--TTTTAAA
18905467 TTTTTTT
1 TTTTTTT
18905474 TATTTTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 13 0.50
23 13 0.50
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTCTCTTTTTTTTAAA
Found at i:18909741 original size:20 final size:18
Alignment explanation
Indices: 18909716--18909752 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
18909706 TTTTTATGAA
18909716 TTTGCATGACTAATATTATC
1 TTTGCATGA-TAAT-TTATC
18909736 TTTGCATGATAATTTAT
1 TTTGCATGATAATTTAT
18909753 TTGCCTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
TTTGCATGATAATTTATC
Found at i:18909837 original size:45 final size:46
Alignment explanation
Indices: 18909777--18909918 Score: 146
Period size: 47 Copynumber: 3.0 Consensus size: 46
18909767 TTTTTGCATG
* * * *
18909777 ATTAATATATCTATTTGTGTGATTTATTAATATT-TTTGCTTGATT
1 ATTAATATATTTATTTGTATGATTTATTAATATTGATTGCATGATT
*
18909822 ATTAATATATTTATTTGCATGATTATATTTAAT-TTGATTGCATGATT
1 ATTAATATATTTATTTGTATGATT-TA-TTAATATTGATTGCATGATT
* * *
18909869 ATTAATATATTTAATTGTTTGA-TTATTAATATATTTATTTGCATGATT
1 ATTAATATATTTATTTGTATGATTTATT-A-ATATTGA-TTGCATGATT
18909917 AT
1 AT
18909919 ATATTTAATT
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
44 2 0.02
45 24 0.30
46 7 0.09
47 36 0.44
48 12 0.15
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.56
Consensus pattern (46 bp):
ATTAATATATTTATTTGTATGATTTATTAATATTGATTGCATGATT
Found at i:18909844 original size:24 final size:24
Alignment explanation
Indices: 18909758--18909918 Score: 144
Period size: 24 Copynumber: 7.0 Consensus size: 24
18909748 TTTATTTGCC
*
18909758 TAATATATTTTTTTGCATG---AT
1 TAATATATTTATTTGCATGATTAT
* **
18909779 TAATATATCTATTTGTGTGATTTAT
1 TAATATATTTATTTGCATGA-TTAT
*
18909804 T-A-ATA-TT-TTTGCTTGATTAT
1 TAATATATTTATTTGCATGATTAT
18909824 TAATATATTTATTTGCATGATTA-
1 TAATATATTTATTTGCATGATTAT
*
18909847 T-ATTTAATTTGA-TTGCATGATTAT
1 TAATAT-ATTT-ATTTGCATGATTAT
* **
18909871 TAATATATTTAATTGTTTGATTAT
1 TAATATATTTATTTGCATGATTAT
18909895 TAATATATTTATTTGCATGATTAT
1 TAATATATTTATTTGCATGATTAT
18909919 ATATTTAATT
Statistics
Matches: 112, Mismatches: 15, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
20 5 0.04
21 23 0.21
22 7 0.06
23 22 0.20
24 49 0.44
25 6 0.05
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.56
Consensus pattern (24 bp):
TAATATATTTATTTGCATGATTAT
Found at i:18909872 original size:47 final size:45
Alignment explanation
Indices: 18909777--18909971 Score: 135
Period size: 47 Copynumber: 4.0 Consensus size: 45
18909767 TTTTTGCATG
* ** * *
18909777 ATTAATATATCTATTTGTGTGATTTATTAATATTTTTGCTTGATT
1 ATTAATATATTTATTTGCATGATTTATTAATATTATTGCATGATT
18909822 ATTAATATATTTATTTGCATGATTATATTTAAT-TTGATTGCATGATT
1 ATTAATATATTTATTTGCATGATT-TA-TTAATATT-ATTGCATGATT
* **
18909869 ATTAATATATTTAATTGTTTGA-TTATTAATATATTTATTTGCATGATT
1 ATTAATATATTTATTTGCATGATTTATT-A-ATA-TTA-TTGCATGATT
* *
18909917 A-TATATTTAATTGTATTTTTTGGCATGATTTATATATTATTAGTTGCATGATT
1 ATTA-ATAT-ATT-TA---TTT-GCATGATTTAT-TAATATTA-TTGCATGATT
18909970 AT
1 AT
18909972 ATATTTAATC
Statistics
Matches: 118, Mismatches: 14, Indels: 27
0.74 0.09 0.17
Matches are distributed among these distances:
44 2 0.02
45 24 0.20
46 7 0.06
47 36 0.31
48 16 0.14
49 3 0.03
50 2 0.02
53 16 0.14
54 6 0.05
55 5 0.04
56 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (45 bp):
ATTAATATATTTATTTGCATGATTTATTAATATTATTGCATGATT
Found at i:18909927 original size:53 final size:52
Alignment explanation
Indices: 18909870--18910035 Score: 126
Period size: 53 Copynumber: 3.1 Consensus size: 52
18909860 TGCATGATTA
18909870 TTAATATATTTAATTGTTTGATTATTAATATATTTATTTGCATGATTATATAT
1 TTAATATATTT-ATTGTTTGATTATTAATATATTTATTTGCATGATTATATAT
* * * * *
18909923 TTAAT-TGTATT-TT-TTGGCATGATTTATATATTATTAGTTGCATGATTATATAT
1 TTAATATAT-TTATTGTTTG-ATTATTAATATA-T-TTATTTGCATGATTATATAT
** * *
18909976 TTAATCGCATATTTATTTGCATGA-T-TTATATATTTTTATTTGCATGATTATACAT
1 TTAAT---ATATTTA-TTGTTTGATTATTA-ATATATTTATTTGCATGATTATATAT
18910031 TTAAT
1 TTAAT
18910036 TGCATGTTTA
Statistics
Matches: 87, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
50 3 0.03
51 12 0.14
52 3 0.03
53 31 0.36
55 23 0.26
56 5 0.06
57 6 0.07
58 3 0.03
59 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (52 bp):
TTAATATATTTATTGTTTGATTATTAATATATTTATTTGCATGATTATATAT
Found at i:18909985 original size:20 final size:23
Alignment explanation
Indices: 18909939--18909991 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 23
18909929 GTATTTTTTG
* *
18909939 GCATGATTTATATATTATTAGTT
1 GCATGATTTATATATTATTAATC
18909962 GCATGA-TTATATA-T-TTAATC
1 GCATGATTTATATATTATTAATC
18909982 GCAT-ATTTAT
1 GCATGATTTAT
18909992 TTGCATGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 12 0.44
21 1 0.04
22 7 0.26
23 6 0.22
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (23 bp):
GCATGATTTATATATTATTAATC
Found at i:18910000 original size:55 final size:55
Alignment explanation
Indices: 18909907--18910089 Score: 241
Period size: 55 Copynumber: 3.4 Consensus size: 55
18909897 ATATATTTAT
*
18909907 TTGCATGATTATATATTTAATTG--TATTT-TTTGGCATGATTTATATATTATTAG
1 TTGCATGATTATATATTTAATTGCATATTTATTT-GCATGATTTATATATTATTAA
* * *
18909960 TTGCATGATTATATATTTAATCGCATATTTATTTGCATGATTTATATATTTTTAT
1 TTGCATGATTATATATTTAATTGCATATTTATTTGCATGATTTATATATTATTAA
* * * *
18910015 TTGCATGATTATACATTTAATTGCATGTTTATTTGAATGA-TT-TACATTATTAA
1 TTGCATGATTATATATTTAATTGCATATTTATTTGCATGATTTATATATTATTAA
*
18910068 TTACATGATTATATATTTAATT
1 TTGCATGATTATATATTTAATT
18910090 ACATGATTAT
Statistics
Matches: 115, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
53 50 0.43
54 2 0.02
55 60 0.52
56 3 0.03
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (55 bp):
TTGCATGATTATATATTTAATTGCATATTTATTTGCATGATTTATATATTATTAA
Found at i:18910032 original size:22 final size:23
Alignment explanation
Indices: 18909987--18910032 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
18909977 TAATCGCATA
*
18909987 TTTATTTGCATGATTTATATATT
1 TTTATTTGCATGATTTATACATT
18910010 TTTATTTGCATGA-TTATACATT
1 TTTATTTGCATGATTTATACATT
18910032 T
1 T
18910033 AATTGCATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.59
Consensus pattern (23 bp):
TTTATTTGCATGATTTATACATT
Found at i:18910033 original size:20 final size:20
Alignment explanation
Indices: 18909986--18910046 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
18909976 TTAATCGCAT
*
18909986 ATTTATTTGCATGATTTATAT
1 ATTTATTTGCATGA-TTATAC
18910007 ATTTTTATTTGCATGATTATAC
1 A--TTTATTTGCATGATTATAC
* *
18910029 ATTTAATTGCATGTTTAT
1 ATTTATTTGCATGATTAT
18910047 TTGAATGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 15 0.43
21 1 0.03
22 6 0.17
23 13 0.37
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.56
Consensus pattern (20 bp):
ATTTATTTGCATGATTATAC
Found at i:18910100 original size:53 final size:54
Alignment explanation
Indices: 18909907--18910100 Score: 225
Period size: 53 Copynumber: 3.6 Consensus size: 54
18909897 ATATATTTAT
* *
18909907 TTGCATGATTATATATTTAATTG--TATTTTTTGGCATGATTTATATATTATTAG
1 TTGCATGATTATATATTTAATTGCATATTATTT-GCATGATTTATATATTATTAA
* * *
18909960 TTGCATGATTATATATTTAATCGCATATTTATTTGCATGATTTATATATTTTTAT
1 TTGCATGATTATATATTTAATTGCATA-TTATTTGCATGATTTATATATTATTAA
* * * *
18910015 TTGCATGATTATACATTTAATTGCATGTTTATTTGAATGA-TT-TACATTATTAA
1 TTGCATGATTATATATTTAATTGCAT-ATTATTTGCATGATTTATATATTATTAA
* *
18910068 TTACATGATTATATATTTAATTACATGATTATT
1 TTGCATGATTATATATTTAATTGCAT-ATTATT
18910101 AATTTATTTA
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
53 59 0.48
54 2 0.02
55 56 0.46
56 5 0.04
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (54 bp):
TTGCATGATTATATATTTAATTGCATATTATTTGCATGATTTATATATTATTAA
Found at i:18910100 original size:108 final size:108
Alignment explanation
Indices: 18909897--18910093 Score: 272
Period size: 108 Copynumber: 1.8 Consensus size: 108
18909887 TTGATTATTA
* * * * *
18909897 ATATATTTATTTGCATGATTATATATTTAATTGTATTTTTTGGCATGATTTATATATTATTAGTT
1 ATATATTTATTTGCATGATTATACATTTAATTGCATTTTTTGGAATGATTTATACATTATTAATT
* *
18909962 GCATGATTATATATTTAATCGCATATTTATTTGCATGATTTAT
66 ACATGATTATATATTTAATCACATATTTATTTGCATGATTTAT
* *
18910005 ATATTTTTATTTGCATGATTATACATTTAATTGCATGTTTATTTGAATGA-TT-TACATTATTAA
1 ATATATTTATTTGCATGATTATACATTTAATTGCAT-TTT-TTGGAATGATTTATACATTATTAA
*
18910068 TTACATGATTATATATTTAATTACAT
64 TTACATGATTATATATTTAATCACAT
18910094 GATTATTAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
108 65 0.84
109 5 0.06
110 7 0.09
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (108 bp):
ATATATTTATTTGCATGATTATACATTTAATTGCATTTTTTGGAATGATTTATACATTATTAATT
ACATGATTATATATTTAATCACATATTTATTTGCATGATTTAT
Found at i:18910108 original size:24 final size:24
Alignment explanation
Indices: 18910064--18910157 Score: 81
Period size: 24 Copynumber: 4.0 Consensus size: 24
18910054 ATTTACATTA
18910064 TTAATTACATGATTA-T-A--TAT
1 TTAATTACATGATTATTAATTTAT
18910084 TTAATTACATGATTATTAATTTAT
1 TTAATTACATGATTATTAATTTAT
* * * *
18910108 TTATTTGCATGGTTATTTATTTAT
1 TTAATTACATGATTATTAATTTAT
* *
18910132 TATTATTGCATGATT-TTATATTTAT
1 T-TAATTACATGATTATTA-ATTTAT
18910157 T
1 T
18910158 GTGTTCATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
20 15 0.25
21 1 0.02
22 1 0.02
24 26 0.43
25 17 0.28
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.57
Consensus pattern (24 bp):
TTAATTACATGATTATTAATTTAT
Found at i:18910324 original size:24 final size:24
Alignment explanation
Indices: 18910275--18910324 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
18910265 ATAACATTCT
*
18910275 TGCATGAATATTTTAATAGATCTA
1 TGCATGAATATTTTAATAGATATA
18910299 TGCATG-ATATTATTACAT-GATATA
1 TGCATGAATATT-TTA-ATAGATATA
18910323 TG
1 TG
18910325 ATATAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 5 0.22
24 16 0.70
25 2 0.09
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (24 bp):
TGCATGAATATTTTAATAGATATA
Found at i:18916732 original size:16 final size:15
Alignment explanation
Indices: 18916713--18916742 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18916703 ATATAAATTC
18916713 AATTTATTATATTTAT
1 AATTTATT-TATTTAT
18916729 AATTTATTTATTTA
1 AATTTATTTATTTA
18916743 ATTAACAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
AATTTATTTATTTAT
Found at i:18918515 original size:27 final size:27
Alignment explanation
Indices: 18918474--18918537 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
18918464 GCTCCAATAT
*
18918474 CTCATGCGCCGTCGGTCCACCCACCGG
1 CTCATGCGCCATCGGTCCACCCACCGG
18918501 CTCATGCGCCATCGGTCCACCCACCGG
1 CTCATGCGCCATCGGTCCACCCACCGG
18918528 CTCATGCGCC
1 CTCATGCGCC
18918538 TTCACCAGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.12, C:0.48, G:0.23, T:0.16
Consensus pattern (27 bp):
CTCATGCGCCATCGGTCCACCCACCGG
Found at i:18919809 original size:15 final size:15
Alignment explanation
Indices: 18919780--18919831 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
18919770 AACACATTTA
*
18919780 ATATATAAA-AAAAT
1 ATATTTAAATAAAAT
18919794 ATATTTAAATAAAAT
1 ATATTTAAATAAAAT
* *
18919809 ATA-TCATATAAAAAT
1 ATATTTAAAT-AAAAT
18919824 ATATTTAA
1 ATATTTAA
18919832 TACGTAACAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 12 0.40
15 16 0.53
16 2 0.07
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATTTAAATAAAAT
Found at i:18920196 original size:18 final size:19
Alignment explanation
Indices: 18920173--18920219 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
18920163 ATAAGTAATG
18920173 TATATATTAAAAT-TTAAA
1 TATATATTAAAATGTTAAA
*
18920191 TATATA-TAACATGTTAAA
1 TATATATTAAAATGTTAAA
**
18920209 TGCATATTAAA
1 TATATATTAAA
18920220 TGGTATCAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 5 0.22
18 15 0.65
19 3 0.13
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (19 bp):
TATATATTAAAATGTTAAA
Found at i:18921662 original size:11 final size:11
Alignment explanation
Indices: 18921648--18921687 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
18921638 TTTTATATTA
18921648 ATAATATAAAT
1 ATAATATAAAT
18921659 ATAATATAAAT
1 ATAATATAAAT
* *
18921670 AATAACATTAAT
1 -ATAATATAAAT
18921682 ATAATA
1 ATAATA
18921688 CATTATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:18921814 original size:18 final size:19
Alignment explanation
Indices: 18921791--18921837 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
18921781 ATAAGTAATG
18921791 TATATATTAAAAT-TTAAA
1 TATATATTAAAATGTTAAA
*
18921809 TATATA-TAATATGTTAAA
1 TATATATTAAAATGTTAAA
**
18921827 TGCATATTAAA
1 TATATATTAAA
18921838 TGGTATCAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 5 0.22
18 15 0.65
19 3 0.13
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (19 bp):
TATATATTAAAATGTTAAA
Found at i:18926151 original size:3 final size:3
Alignment explanation
Indices: 18926143--18926208 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
18926133 TAGAAATTCC
18926143 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18926191 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
18926209 TGATGTGAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18927125 original size:156 final size:154
Alignment explanation
Indices: 18926771--18927374 Score: 755
Period size: 156 Copynumber: 3.9 Consensus size: 154
18926761 GTTTCTGCCG
* *
18926771 TATCTTGGAAAGCTATTGAACTCTCCATGCCTTCATGAAACTTTCATTTATCAAAGCAAGGATTT
1 TATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTCATTTATCAAAACAAGGATTT
** *
18926836 GGCAAACCAAATAAACATGAACTTTCAAGGCAACAAAAGGGATGGAAGCT-AGTTTCAAAAACTT
66 GGCAAACCAAA-AAACATGAACTTTCAAGGCAATGAAAGGGATGGAAGCTGA-TTTCATAAACTT
**
18926900 TTTCTTTTTGCTTTTTTTTTTTTTGTTCTTGCC
129 TTTC--CAT--TTTTTTTTTTTTT-TT-TT-CC
* * *
18926933 ATATCTTAGAAAGCTATTGAACTCTTTATGCCTTCATGAAACTTTCATTTATCAAAACAAGGATC
1 -TATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTCATTTATCAAAACAAGGATT
* *** *
18926998 TGGCAAACCTAAAAACATGAACTTTCAAGGCAATGAAAGGGACAAAAGTTGATTTCATAAACTTT
65 TGGCAAACCAAAAAACATGAACTTTCAAGGCAATGAAAGGGATGGAAGCTGATTTCATAAACTTT
18927063 TTCCATTTTTTTTTTTTTACTTTTTCC
130 TTCCATTTTTTTTTTTTT--TTTTTCC
*
18927090 TATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTCATTTATCTAAACAAGGATTT
1 TATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTCATTTATCAAAACAAGGATTT
* *
18927155 TGCAAACCAAAAAACATGAACTTTCAAGGCAATGAAAGGGATGGAAGCTGGTTTCATAAACTTTT
66 GGCAAACCAAAAAACATGAACTTTCAAGGCAATGAAAGGGATGGAAGCTGATTTCATAAACTTTT
* ** *
18927220 TCCATTTTTTTTTAGTTTTTAAT-G
131 TCCATTTTTTTTT-TTTTTTTTTCC
* * ** *
18927244 TATCTTGAAAAGCTATTGAACTCTTTATGCCTTCAAAAAACTTTCATTTATCAAAACACGGATTT
1 TATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTCATTTATCAAAACAAGGATTT
* * * * * * *
18927309 GGCAAACCAAAAAACGTGAATTTTCAAGACAATGAAAAGGATAGAAGCT-AGTTTTAGAAACTTT
66 GGCAAACCAAAAAACATGAACTTTCAAGGCAATGAAAGGGATGGAAGCTGA-TTTCATAAACTTT
18927373 TT
130 TT
18927375 GTTGCTGTTT
Statistics
Matches: 391, Mismatches: 45, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
154 115 0.29
155 3 0.01
156 132 0.34
157 5 0.01
158 14 0.04
159 2 0.01
160 2 0.01
162 47 0.12
163 71 0.18
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (154 bp):
TATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTCATTTATCAAAACAAGGATTT
GGCAAACCAAAAAACATGAACTTTCAAGGCAATGAAAGGGATGGAAGCTGATTTCATAAACTTTT
TCCATTTTTTTTTTTTTTTTTTCC
Found at i:18927344 original size:310 final size:315
Alignment explanation
Indices: 18926771--18927345 Score: 867
Period size: 310 Copynumber: 1.8 Consensus size: 315
18926761 GTTTCTGCCG
18926771 TATCTTGGAAAGCTATTGAACTCTCCATGCCTTCATGAAACTTTCATTTATCAAAGCAAGGATTT
1 TATCTTGGAAAGCTATTGAACTCTCCATGCCTTCATGAAACTTTCATTTATCAAAGCAAGGATTT
18926836 GGCAAACCAAATAAACATGAACTTTCAAGGCAACAAAAGGGATGGAAGCTAGTTTCAAAAACTTT
66 GGCAAACCAAATAAACATGAACTTTCAAGGCAACAAAAGGGATGGAAGCTAGTTTCAAAAACTTT
** ** **
18926901 TTCTTTTTGCTTTTTTTTTTTTTGTTCTTGCCATATCTTAGAAAGCTATTGAACTCTTTATGCCT
131 TTC-TCAT-CTTTTTTTTAGTTTGTTAATG-C-TATCTTAGAAAGCTATTGAACTCTTTATGCCT
** * *
18926966 TCATGAAACTTTCATTTATCAAAACAAGGATCTGGCAAACCTAAAAACATGAACTTTCAAGGCAA
192 TCAAAAAACTTTCATTTATCAAAACAAGGATCTGGCAAACCAAAAAACATGAACTTTCAAGACAA
18927031 TGAAAGGGACAAAAGTTGATTTCATAAACTTTTTCCATTTTTTTTTTTTTACTTTTTCC
257 TGAAAGGGACAAAAGTTGATTTCATAAACTTTTTCCATTTTTTTTTTTTTACTTTTTCC
*
18927090 TATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTCATTTATCTAAA-CAAGGATT
1 TATCTTGGAAAGCTATTGAACTCTCCATGCCTTCATGAAACTTTCATTTATC-AAAGCAAGGATT
* ** * *
18927154 TTGCAAACCAAA-AAACATGAACTTTCAAGGCAATGAAAGGGATGGAAGCTGGTTTCATAAACTT
65 TGGCAAACCAAATAAACATGAACTTTCAAGGCAACAAAAGGGATGGAAGCTAGTTTCAAAAACTT
18927218 TTTC-CAT-TTTTTTTTAGTTT-TTAATG-TATCTT-GAAAAGCTATTGAACTCTTTATGCCTTC
130 TTTCTCATCTTTTTTTTAGTTTGTTAATGCTATCTTAG-AAAGCTATTGAACTCTTTATGCCTTC
* * * *
18927278 AAAAAACTTTCATTTATCAAAACACGGATTTGGCAAACCAAAAAACGTGAATTTTCAAGACAATG
194 AAAAAACTTTCATTTATCAAAACAAGGATCTGGCAAACCAAAAAACATGAACTTTCAAGACAATG
18927343 AAA
259 AAA
18927346 AGGATAGAAG
Statistics
Matches: 234, Mismatches: 20, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
309 1 0.00
310 92 0.39
313 4 0.02
314 11 0.05
316 1 0.00
318 52 0.22
319 70 0.30
320 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (315 bp):
TATCTTGGAAAGCTATTGAACTCTCCATGCCTTCATGAAACTTTCATTTATCAAAGCAAGGATTT
GGCAAACCAAATAAACATGAACTTTCAAGGCAACAAAAGGGATGGAAGCTAGTTTCAAAAACTTT
TTCTCATCTTTTTTTTAGTTTGTTAATGCTATCTTAGAAAGCTATTGAACTCTTTATGCCTTCAA
AAAACTTTCATTTATCAAAACAAGGATCTGGCAAACCAAAAAACATGAACTTTCAAGACAATGAA
AGGGACAAAAGTTGATTTCATAAACTTTTTCCATTTTTTTTTTTTTACTTTTTCC
Found at i:18931537 original size:19 final size:18
Alignment explanation
Indices: 18931499--18931558 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
18931489 TATCTACTAT
**
18931499 TTATTCATATTTATCAATG
1 TTATTCAT-TTTATTTATG
18931518 TTATTCATGTTTATTTATG
1 TTATTCAT-TTTATTTATG
* *
18931537 TATATTAATATTATTTATG
1 T-TATTCATTTTATTTATG
18931556 TTA
1 TTA
18931559 GTCGTATCGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 2 0.06
19 27 0.77
20 6 0.17
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (18 bp):
TTATTCATTTTATTTATG
Found at i:18934855 original size:19 final size:20
Alignment explanation
Indices: 18934815--18934854 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18934805 TAAAATTTTT
18934815 ATTTTGTATTTATATTTAAA
1 ATTTTGTATTTATATTTAAA
*
18934835 ATTTTTTATTT-TATTATAAA
1 ATTTTGTATTTATATT-TAAA
18934855 TGTTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTTTGTATTTATATTTAAA
Found at i:18934860 original size:27 final size:25
Alignment explanation
Indices: 18934805--18934874 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 25
18934795 CCCCTAATCA
*
18934805 TAAAA-TTTTTATTTTGTATTTATATT
1 TAAAATTTTTTA-TTT-TATTTAAATT
18934831 TAAAATTTTTTATTTTATTATAAATGT
1 TAAAATTTTTTATTTTATT-TAAAT-T
*
18934858 T-AAATTTCTTATGTTTA
1 TAAAATTTTTTAT-TTTA
18934875 ATATCATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 4 0.11
26 22 0.58
27 12 0.32
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (25 bp):
TAAAATTTTTTATTTTATTTAAATT
Found at i:18938597 original size:20 final size:19
Alignment explanation
Indices: 18938568--18938612 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
18938558 TGTTTTATTT
* *
18938568 AAAATTATTTGATTTATTAA
1 AAAATAATTT-ATTTAATAA
*
18938588 AAAATAATTTTTTTAATAA
1 AAAATAATTTATTTAATAA
18938607 AAAATA
1 AAAATA
18938613 CAGCTTCCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AAAATAATTTATTTAATAA
Found at i:18946255 original size:18 final size:19
Alignment explanation
Indices: 18946234--18946274 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
18946224 TAAATTCAAA
*
18946234 TTTATAT-TTAAATAAAAT
1 TTTATATATGAAATAAAAT
*
18946252 TTTA-ATATGAATTAAAAT
1 TTTATATATGAAATAAAAT
18946270 TTTAT
1 TTTAT
18946275 CTAAACTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTATATATGAAATAAAAT
Found at i:18946352 original size:29 final size:30
Alignment explanation
Indices: 18946287--18946354 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
18946277 AAACTAACAA
**
18946287 TTATTTAAATATAATTAACAAATTAAAATT
1 TTATTTAAATATAATTAACAAATTAAAAAC
*
18946317 TTATTTAGATATAA-TAA-AAATATAAAAAC
1 TTATTTAAATATAATTAACAAAT-TAAAAAC
18946346 TTATTTAAA
1 TTATTTAAA
18946355 AAAAAAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 4 0.12
29 16 0.48
30 13 0.39
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (30 bp):
TTATTTAAATATAATTAACAAATTAAAAAC
Done.