Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 61 of 333
Found at i:18075038 original size:30 final size:31
Alignment explanation
Indices: 18075002--18075060 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
18074992 ATAATTATAC
*
18075002 TTAAATTTT-AAAATTTAAAAA-ATAAAAAAA
1 TTAAATTTTCAAAA-ATAAAAATATAAAAAAA
18075032 TTAAATTTTCAAAAATAAAAATATAAAAA
1 TTAAATTTTCAAAAATAAAAATATAAAAA
18075061 TGAAATTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (31 bp):
TTAAATTTTCAAAAATAAAAATATAAAAAAA
Found at i:18075058 original size:22 final size:23
Alignment explanation
Indices: 18075009--18075061 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
18074999 TACTTAAATT
18075009 TTAAAATTTAAAAAATAAAAAAA
1 TTAAAATTTAAAAAATAAAAAAA
* * *
18075032 TTAAATTTTCAAAAATAAAAATA
1 TTAAAATTTAAAAAATAAAAAAA
*
18075055 TAAAAAT
1 TTAAAAT
18075062 GAAATTCCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
TTAAAATTTAAAAAATAAAAAAA
Found at i:18075789 original size:27 final size:29
Alignment explanation
Indices: 18075759--18075816 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
18075749 TATTCTTAAA
18075759 TTTTAATT-TTTT-TAAAAATTATGATTT
1 TTTTAATTCTTTTGTAAAAATTATGATTT
* * *
18075786 TTTTTATTCTTTTGTAAATATTTTGATTT
1 TTTTAATTCTTTTGTAAAAATTATGATTT
18075815 TT
1 TT
18075817 AAAAAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 7 0.27
28 4 0.15
29 15 0.58
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (29 bp):
TTTTAATTCTTTTGTAAAAATTATGATTT
Found at i:18081879 original size:22 final size:20
Alignment explanation
Indices: 18081850--18081902 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
18081840 TTTTATTTCA
18081850 ATTAATTTAGACATTTTTTTAT
1 ATTAATTTA-ACATTTTTTT-T
* *
18081872 TTTAATTTTAATATTTTTTTT
1 ATTAA-TTTAACATTTTTTTT
18081893 ATTAATTTAA
1 ATTAATTTAA
18081903 TTTTTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 5 0.19
21 5 0.19
22 13 0.48
23 4 0.15
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTAATTTAACATTTTTTTT
Found at i:18081890 original size:21 final size:19
Alignment explanation
Indices: 18081862--18081907 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
18081852 TAATTTAGAC
18081862 ATTTTTTTATT-TTAATTTTA
1 ATTTTTTT-TTATTAA-TTTA
18081882 ATATTTTTTTTATTAATTTA
1 AT-TTTTTTTTATTAATTTA
18081902 ATTTTT
1 ATTTTT
18081908 ACATTCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.17
20 10 0.42
21 10 0.42
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTTTTTTATTAATTTA
Found at i:18093529 original size:38 final size:36
Alignment explanation
Indices: 18093487--18093560 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 36
18093477 AAATCATGCC
* * *
18093487 AAAAAAATTGTCAGCTTTGTATAAAGAAAACATCAAAT
1 AAAAAAAATATCAGCATTGTATAAA-AAAA-ATCAAAT
18093525 AAAAAAAATATCAGCATTGTATAAAAAAAATCAAAT
1 AAAAAAAATATCAGCATTGTATAAAAAAAATCAAAT
18093561 TACTAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 7 0.21
37 4 0.12
38 22 0.67
ACGTcount: A:0.58, C:0.09, G:0.08, T:0.24
Consensus pattern (36 bp):
AAAAAAAATATCAGCATTGTATAAAAAAAATCAAAT
Found at i:18103353 original size:3 final size:3
Alignment explanation
Indices: 18103345--18103379 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18103335 TGATAGTTTG
18103345 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18103380 TTCTTTAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18107690 original size:17 final size:17
Alignment explanation
Indices: 18107657--18107690 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18107647 CCATGCTTCA
* *
18107657 AATTTGAAGCTTCTATT
1 AATTTGAACCTTATATT
18107674 AATTTGAACCTTATATT
1 AATTTGAACCTTATATT
18107691 CACGTTTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (17 bp):
AATTTGAACCTTATATT
Found at i:18108700 original size:13 final size:13
Alignment explanation
Indices: 18108684--18108708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18108674 AAAAGACTTG
18108684 AAAAAACTAAAAA
1 AAAAAACTAAAAA
18108697 AAAAAACTAAAA
1 AAAAAACTAAAA
18108709 CCTACTAGAG
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:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAACTAAAAA
Found at i:18114982 original size:55 final size:55
Alignment explanation
Indices: 18114923--18115031 Score: 128
Period size: 55 Copynumber: 2.0 Consensus size: 55
18114913 CTAGCCTGCC
* **
18114923 AAAACAACACGAGCGTACAACACGCCCGTGTGGAGGAACCATGGTCGAACCTGTT
1 AAAACAACACGAGCGTACAACACGCCCGTGTCGAACAACCATGGTCGAACCTGTT
* * *** * *
18114978 AAAACAGCACGGGCGTGTGACACGCCCGTGTCGAACACCCGTGGTCGAACCTGT
1 AAAACAACACGAGCGTACAACACGCCCGTGTCGAACAACCATGGTCGAACCTGT
18115032 CAAACGTCTA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.28, C:0.29, G:0.28, T:0.15
Consensus pattern (55 bp):
AAAACAACACGAGCGTACAACACGCCCGTGTCGAACAACCATGGTCGAACCTGTT
Found at i:18131339 original size:28 final size:27
Alignment explanation
Indices: 18131286--18131339 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
18131276 TCTTTTTTTA
* *
18131286 TTTTTTAAAATTAAAAAAGTCTAATTG
1 TTTTATAAAATTAAAAAAGTATAATTG
18131313 TTTTATAAAATTATAAAATA-TATAATT
1 TTTTATAAAATTA-AAAA-AGTATAATT
18131340 ATAAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 12 0.52
28 10 0.43
29 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (27 bp):
TTTTATAAAATTAAAAAAGTATAATTG
Found at i:18136556 original size:7 final size:7
Alignment explanation
Indices: 18136544--18136568 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18136534 CTTTCATATT
18136544 TTCTTTA
1 TTCTTTA
18136551 TTCTTTA
1 TTCTTTA
18136558 TTCTTTA
1 TTCTTTA
18136565 TTCT
1 TTCT
18136569 ACTCATCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTTA
Found at i:18139830 original size:50 final size:48
Alignment explanation
Indices: 18139707--18139936 Score: 180
Period size: 50 Copynumber: 4.8 Consensus size: 48
18139697 GGTAGGAAGC
* *
18139707 CGATGTCATGTCCCAGATATGGTCTTACACTAGCTCACGTATCAAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTATCAAAGT
* * ** * *
18139755 CAATGCAATGTCCCAGACATGGTCTTACACTAGCTCTTGTATGTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTA--TCAAAGT
* * * *** *
18139805 CGATGCCATGTCCCAAACATGGTCTTACACT-GAATCTCGTCCATCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCACGT--ATCAAAGT
* * * * *
18139855 CGATGTCATGTCCCAGACATGGTCTTACACT-GACACAC--CTCATAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCACGTATCAAAGT
* *
18139901 CGATGTCATGTCCCATACATGGTCTTACACTAGCTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
18139937 TCGAATAACC
Statistics
Matches: 148, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
46 36 0.24
47 1 0.01
48 35 0.24
49 1 0.01
50 74 0.50
52 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTATCAAAGT
Found at i:18142882 original size:35 final size:35
Alignment explanation
Indices: 18142814--18142924 Score: 96
Period size: 35 Copynumber: 3.1 Consensus size: 35
18142804 AAACCACCCA
* * * * *
18142814 AACACACCAGATACTTATAATAGCCAATTCAACCGT
1 AACACACCA-ATGCTCATAAGAGCTAATCCAACCGT
* ** * *
18142850 ATCATGCCAATGCTTATAAGAGTTAATCCAACCGT
1 AACACACCAATGCTCATAAGAGCTAATCCAACCGT
* * *
18142885 AACACATCAATGCTCATAAGAGCTAATCCAAACGA
1 AACACACCAATGCTCATAAGAGCTAATCCAACCGT
18142920 AACAC
1 AACAC
18142925 GTCAAATATA
Statistics
Matches: 59, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
35 53 0.90
36 6 0.10
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.22
Consensus pattern (35 bp):
AACACACCAATGCTCATAAGAGCTAATCCAACCGT
Found at i:18149293 original size:9 final size:9
Alignment explanation
Indices: 18149279--18149364 Score: 56
Period size: 9 Copynumber: 9.6 Consensus size: 9
18149269 CATGTGGTAA
18149279 AAAAATTAT
1 AAAAATTAT
18149288 -AAAA--AT
1 AAAAATTAT
*
18149294 AAAAATCAAT
1 AAAAAT-TAT
18149304 AAAAATTAT
1 AAAAATTAT
18149313 AAAAATTAT
1 AAAAATTAT
* * *
18149322 -TAAGTTTT
1 AAAAATTAT
18149330 AACAAA-TAT
1 AA-AAATTAT
18149339 AAAAAATTTATT
1 -AAAAA-TTA-T
18149351 AAAAATTAT
1 AAAAATTAT
18149360 AAAAA
1 AAAAA
18149365 AAAGCATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
6 2 0.03
7 4 0.07
8 9 0.15
9 22 0.37
10 15 0.25
11 7 0.12
12 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:18149707 original size:19 final size:19
Alignment explanation
Indices: 18149685--18149731 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
18149675 TTTCTATATA
* *
18149685 TTTTATAATTTTTTACTAT
1 TTTTATAAATTTTTACGAT
18149704 TTTTATAAATTTTTACGAT
1 TTTTATAAATTTTTACGAT
*
18149723 TTTCATAAA
1 TTTTATAAA
18149732 AAAAATTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTATAAATTTTTACGAT
Found at i:18149771 original size:19 final size:20
Alignment explanation
Indices: 18149747--18149800 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
18149737 TTTCTATTTT
18149747 TTTAAT-ATTTTTATTAAAA
1 TTTAATAATTTTTATTAAAA
*
18149766 TTTAATAATTTTTA-TAAAT
1 TTTAATAATTTTTATTAAAA
* *
18149785 TTTATTGATTTTTATT
1 TTTAATAATTTTTATT
18149801 TTTATCATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTAATAATTTTTATTAAAA
Found at i:18153800 original size:21 final size:20
Alignment explanation
Indices: 18153759--18153800 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
18153749 TTAAAATAGG
*
18153759 ATAAAATAAATAATTAGTTA
1 ATAAAATAAATAATTAATTA
18153779 ATAATAAT-AATAATTTAATTA
1 ATAA-AATAAATAA-TTAATTA
18153800 A
1 A
18153801 ATAACTATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAATAAATAATTAATTA
Found at i:18158156 original size:8 final size:8
Alignment explanation
Indices: 18158114--18158138 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18158104 AGATAGACTA
18158114 AATAAAAT
1 AATAAAAT
18158122 AATAAAAT
1 AATAAAAT
18158130 AATAAAAT
1 AATAAAAT
18158138 A
1 A
18158139 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:18158162 original size:29 final size:31
Alignment explanation
Indices: 18158111--18158179 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
18158101 TATAGATAGA
*
18158111 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
18158140 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
18158171 CTAATTAAA
1 CTAATTAAA
18158180 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:18160130 original size:37 final size:39
Alignment explanation
Indices: 18160080--18160167 Score: 108
Period size: 37 Copynumber: 2.3 Consensus size: 39
18160070 CCATTCAATA
* ** *
18160080 TCATTCAATATAACAGTATGATTT-GCTCGATTGAGC-T
1 TCATTCAGTATAACAGTAAAATTTGGCTCGATAGAGCAT
18160117 TCATTCAGTATAACAGTAAAATTTGGCTCGATAGAGCAT
1 TCATTCAGTATAACAGTAAAATTTGGCTCGATAGAGCAT
* *
18160156 ACTTTCAGTATA
1 TCATTCAGTATA
18160168 TGAAACAACA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 21 0.49
38 11 0.26
39 11 0.26
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (39 bp):
TCATTCAGTATAACAGTAAAATTTGGCTCGATAGAGCAT
Found at i:18160994 original size:22 final size:23
Alignment explanation
Indices: 18160953--18161013 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
18160943 TTTTAACTTT
* *
18160953 CTTAATTAAGCTTTAA-TAAATCA
1 CTTAATTAAGC-ATAATTAAACCA
18160976 -TTAATTAAGCATAATTAAACCA
1 CTTAATTAAGCATAATTAAACCA
*
18160998 CTTTATTAAGCATAAT
1 CTTAATTAAGCATAAT
18161014 CTCATCAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 3 0.09
22 16 0.48
23 14 0.42
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (23 bp):
CTTAATTAAGCATAATTAAACCA
Found at i:18173575 original size:15 final size:15
Alignment explanation
Indices: 18173555--18173606 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
18173545 ACTATAAAAC
18173555 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
18173570 ATTTATAATTCTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
18173589 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
18173604 ATT
1 ATT
18173607 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:18173670 original size:16 final size:16
Alignment explanation
Indices: 18173639--18173675 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
18173629 ATGTGAAGAA
18173639 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
18173655 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
18173671 TATTA
1 TATTA
18173676 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:18173710 original size:13 final size:12
Alignment explanation
Indices: 18173690--18173732 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
18173680 AAAATTAAAA
18173690 TATTAAATAATT
1 TATTAAATAATT
18173702 TATTAAAATAAATT
1 TATT-AAAT-AATT
18173716 ATATT-AATAATT
1 -TATTAAATAATT
18173728 TATTA
1 TATTA
18173733 TATGACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
11 4 0.15
12 8 0.30
13 7 0.26
14 4 0.15
15 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TATTAAATAATT
Found at i:18173724 original size:26 final size:29
Alignment explanation
Indices: 18173670--18173732 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 29
18173660 TTAAAATTTA
18173670 TTATTAAAATAAAATTAAAATATTAAATAAT
1 TTATTAAAATAAAATT--AATATTAAATAAT
18173701 TTATTAAAAT-AAATT-ATATT-AATAAT
1 TTATTAAAATAAAATTAATATTAAATAAT
18173727 TTATTA
1 TTATTA
18173733 TATGACTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 12 0.38
27 5 0.16
30 5 0.16
31 10 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TTATTAAAATAAAATTAATATTAAATAAT
Found at i:18176313 original size:17 final size:17
Alignment explanation
Indices: 18176288--18176321 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18176278 AATGCCTCCC
*
18176288 ATTTCTTTTATATATTT
1 ATTTCTTTTAAATATTT
*
18176305 ATTTTTTTTAAATATTT
1 ATTTCTTTTAAATATTT
18176322 TACTATATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTCTTTTAAATATTT
Found at i:18179241 original size:48 final size:48
Alignment explanation
Indices: 18179125--18179261 Score: 188
Period size: 48 Copynumber: 2.9 Consensus size: 48
18179115 TAGTTGGCAA
* *
18179125 TTTATCTGCTCGACCAACGGTTTATGCGCAATGTATTTTA-T-AGCAG
1 TTTATCTGCTCGACCAACGGTTTATGCACAACGTATTTTAGTCAGCAG
* *
18179171 TTTATCTGCTCGACCAACGGTTTATGCACAACGTATATTAGTCAGTAG
1 TTTATCTGCTCGACCAACGGTTTATGCACAACGTATTTTAGTCAGCAG
* * * *
18179219 TTTATTTGTTCGACCAATGGTTTATCCACAACGTATTTTAGTC
1 TTTATCTGCTCGACCAACGGTTTATGCACAACGTATTTTAGTC
18179262 GGGAGTCATC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 37 0.46
47 1 0.01
48 42 0.52
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (48 bp):
TTTATCTGCTCGACCAACGGTTTATGCACAACGTATTTTAGTCAGCAG
Found at i:18183811 original size:44 final size:44
Alignment explanation
Indices: 18183748--18183880 Score: 257
Period size: 44 Copynumber: 3.0 Consensus size: 44
18183738 AATATTTGTT
18183748 AGATCCAATTCAGTTATTAGTCTCATATTATGTCTAAGTTATGG
1 AGATCCAATTCAGTTATTAGTCTCATATTATGTCTAAGTTATGG
18183792 AGATCCAATTCAGTTATTAGTCTCATATTATGTCTAAGTTATGG
1 AGATCCAATTCAGTTATTAGTCTCATATTATGTCTAAGTTATGG
*
18183836 AGATCCAATTCAGCTATTAGTCTCATATTATGTCTAAGTTATGG
1 AGATCCAATTCAGTTATTAGTCTCATATTATGTCTAAGTTATGG
18183880 A
1 A
18183881 TTTTAGTCCC
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 88 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (44 bp):
AGATCCAATTCAGTTATTAGTCTCATATTATGTCTAAGTTATGG
Found at i:18195936 original size:26 final size:27
Alignment explanation
Indices: 18195871--18195929 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
18195861 ATTTTTTAGA
**
18195871 TTATATATTTTTAAAAATTAAGTTTTTT
1 TTATA-ATTTTTAAAAATTAAAATTTTT
* *
18195899 TTGTAATTTTTAAAAGTTAAAATTTTT
1 TTATAATTTTTAAAAATTAAAATTTTT
18195926 TTAT
1 TTAT
18195930 TTTTTTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (27 bp):
TTATAATTTTTAAAAATTAAAATTTTT
Found at i:18195968 original size:15 final size:18
Alignment explanation
Indices: 18195931--18195977 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
18195921 TTTTTTTATT
18195931 TTTTTATTTTATATAATA
1 TTTTTATTTTATATAATA
18195949 TTTTTATTTT-TA-AA-A
1 TTTTTATTTTATATAATA
18195964 TTTTTA-TTTATATA
1 TTTTTATTTTATATA
18195978 TTTTAGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.11
15 9 0.33
16 3 0.11
17 2 0.07
18 10 0.37
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTATTTTATATAATA
Found at i:18196014 original size:16 final size:17
Alignment explanation
Indices: 18195978--18196014 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
18195968 TATTTATATA
*
18195978 TTTTAGAATATTTTTAT
1 TTTTAGAATATTTTAAT
18195995 TTTTAGAAT-TTTTAAT
1 TTTTAGAATATTTTAAT
18196011 TTTT
1 TTTT
18196015 TTGAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTTAGAATATTTTAAT
Found at i:18198842 original size:18 final size:18
Alignment explanation
Indices: 18198819--18198856 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
18198809 ATTAAAATTA
18198819 AAAAATCAAATTTAAACT
1 AAAAATCAAATTTAAACT
*
18198837 AAAAATTAAATTTAAACT
1 AAAAATCAAATTTAAACT
18198855 AA
1 AA
18198857 TTACATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATCAAATTTAAACT
Found at i:18200341 original size:21 final size:20
Alignment explanation
Indices: 18200317--18200357 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18200307 TTTCTTTTTG
*
18200317 AATTTTATGAGTTTATTTTAT
1 AATTTTATGA-ATTATTTTAT
*
18200338 AATTTTTTGAATTATTTTAT
1 AATTTTATGAATTATTTTAT
18200358 TTTTAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (20 bp):
AATTTTATGAATTATTTTAT
Found at i:18203741 original size:84 final size:84
Alignment explanation
Indices: 18203653--18203845 Score: 248
Period size: 84 Copynumber: 2.3 Consensus size: 84
18203643 TTAATAGCAT
* *
18203653 AAATGATGAAAACCAAAACAGTAGAGTCAAGGAGTTTACCCCGAA-GAGACTCAAG-TTCAGACG
1 AAATGGTGAAAACCAAAACAGTAGAGTCAAGGAGTGTACCCC-AAGGAGACTCAAGTTTC-GACG
18203716 AAGAGAAATTGTTGACAACCA
64 AAGAGAAATTGTTGACAACCA
* * * * *
18203737 AAATGGT-AATAACCAAAACGGTAAAGTCAAGGAGTGTACTCCAAGGAGACTGAAGTTTCGGCGA
1 AAATGGTGAA-AACCAAAACAGTAGAGTCAAGGAGTGTACCCCAAGGAGACTCAAGTTTCGACGA
*
18203801 AGAGTAATTGTTGACAACCA
65 AGAGAAATTGTTGACAACCA
* *
18203821 AAATGGTGATAACAAAAACAGTAGA
1 AAATGGTGAAAACCAAAACAGTAGA
18203846 ATTGAGGAAC
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
83 4 0.04
84 85 0.91
85 4 0.04
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.18
Consensus pattern (84 bp):
AAATGGTGAAAACCAAAACAGTAGAGTCAAGGAGTGTACCCCAAGGAGACTCAAGTTTCGACGAA
GAGAAATTGTTGACAACCA
Found at i:18203861 original size:84 final size:84
Alignment explanation
Indices: 18203667--18203902 Score: 230
Period size: 84 Copynumber: 2.8 Consensus size: 84
18203657 GATGAAAACC
* * * * * * * *
18203667 AAAACAGTAGAGTCAAGGAGTTTACCCCGAA-GAGACTCAAGTTCAGACGAAGAGAAATTGTTGA
1 AAAACAGTAAAGTCAAGGACTGTACTCC-AAGGAGACACGAGTTCAGGCGAAGAGTAATTGTTGA
*
18203731 CAACCAAAATGGTAATAACC
65 CAACCAAAATGGTAATAACA
* * *
18203751 AAAACGGTAAAGTCAAGGAGTGTACTCCAAGGAGAC-TGAAGTTTC-GGCGAAGAGTAATTGTTG
1 AAAACAGTAAAGTCAAGGACTGTACTCCAAGGAGACACG-AG-TTCAGGCGAAGAGTAATTGTTG
*
18203814 ACAACCAAAATGGTGATAACA
64 ACAACCAAAATGGTAATAACA
** * * *
18203835 AAAACAGTAGAA-TTGAGGAACT-TACTCCAAGGATACACGAGTTCAGGCGAAAATTAATTGTTG
1 AAAACAGTA-AAGTCAAGG-ACTGTACTCCAAGGAGACACGAGTTCAGGCGAAGAGTAATTGTTG
18203898 ACAAC
64 ACAAC
18203903 ATAGATGATC
Statistics
Matches: 127, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
83 5 0.04
84 114 0.90
85 8 0.06
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (84 bp):
AAAACAGTAAAGTCAAGGACTGTACTCCAAGGAGACACGAGTTCAGGCGAAGAGTAATTGTTGAC
AACCAAAATGGTAATAACA
Found at i:18204362 original size:81 final size:81
Alignment explanation
Indices: 18203944--18204361 Score: 660
Period size: 81 Copynumber: 5.2 Consensus size: 81
18203934 AGGAGTTTAG
* * * *
18203944 TCCAAGGAAACTTGAGTCCCGCCAAAGAAATCTTGACAACAGAAATTCTGATGTTCAAAATAGTA
1 TCCAAGAAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
18204009 GAGGTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
* * *
18204025 TCC-AGCAAAATTTGATTCCTGCCGAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
1 TCCAAG-AAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
18204089 AGAGGTGAGGACTCTGC
65 AGAGGTGAGGACTCTGC
**
18204106 TCCAACG-GCACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
1 TCCAA-GAAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
*
18204170 AGAGGTGAGGACACTGC
65 AGAGGTGAGGACTCTGC
* *
18204187 TCCAACAAAACTTGAGTCCTGCCAAAGAGCTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
1 TCCAAGAAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
18204252 GAGGTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
* *
18204268 TCCAACAAAACTTAAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
1 TCCAAGAAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
*
18204333 GAGTTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
*
18204349 TCCAAGGAAACTT
1 TCCAAGAAAACTT
18204362 ATCTTCAGGC
Statistics
Matches: 310, Mismatches: 23, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
80 2 0.01
81 306 0.99
82 1 0.00
83 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (81 bp):
TCCAAGAAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
GAGGTGAGGACTCTGC
Found at i:18218659 original size:14 final size:15
Alignment explanation
Indices: 18218612--18218664 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
18218602 AATCCAAGTC
18218612 AGATAAA-AAATTTGA
1 AGATAAATAAA-TTGA
*
18218627 AGAAAAAT-AATTGA
1 AGATAAATAAATTGA
18218641 A-ATAAATAAATT-A
1 AGATAAATAAATTGA
*
18218654 AGATAAGTAAA
1 AGATAAATAAA
18218665 ATAGAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 7 0.22
14 17 0.53
15 8 0.25
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (15 bp):
AGATAAATAAATTGA
Found at i:18218798 original size:28 final size:28
Alignment explanation
Indices: 18218766--18218824 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
18218756 ACAAGAAGAA
* **
18218766 TCCACGACCCCCTTAAGTGACTCTAATT
1 TCCACAACCCCCTTAAACGACTCTAATT
18218794 TCCACAACCCCCTTAAACGACTCTAATT
1 TCCACAACCCCCTTAAACGACTCTAATT
18218822 TCC
1 TCC
18218825 CCTCCAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.27, C:0.39, G:0.07, T:0.27
Consensus pattern (28 bp):
TCCACAACCCCCTTAAACGACTCTAATT
Found at i:18218954 original size:27 final size:25
Alignment explanation
Indices: 18218902--18218954 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
18218892 AAACTCTTCT
*
18218902 AAAAGAAACTCAAGAGAAATTCTTG
1 AAAAGAAACTCAAGAGAAATTATTG
*
18218927 AAAAGAAAACTCAAAGAGAATTTATTG
1 AAAAG-AAACTC-AAGAGAAATTATTG
18218954 A
1 A
18218955 CTCAAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 6 0.25
27 13 0.54
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.21
Consensus pattern (25 bp):
AAAAGAAACTCAAGAGAAATTATTG
Found at i:18227293 original size:30 final size:30
Alignment explanation
Indices: 18227244--18227304 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
18227234 GAGTTTTCAG
* * **
18227244 GATCCACACGGGCATGCCACATGCCCATGT
1 GATCCACACGAGCAGGCCACACACCCATGT
*
18227274 GATCCACACGAGTAGGCCACACACCCATGT
1 GATCCACACGAGCAGGCCACACACCCATGT
18227304 G
1 G
18227305 CTAGCCCATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.36, G:0.23, T:0.15
Consensus pattern (30 bp):
GATCCACACGAGCAGGCCACACACCCATGT
Found at i:18231635 original size:199 final size:199
Alignment explanation
Indices: 18231276--18231635 Score: 578
Period size: 199 Copynumber: 1.8 Consensus size: 199
18231266 TGACCCATAT
* * *
18231276 GGCCTGGCCACATGGGTGTGTGGAGCACACGGCCTGACCACACGGGCGTGTGGGATCTCACATGG
1 GGCCTGGCCACACGGGTGTGTGGAGCACACGGCCTGACCACACGGGCGTATGGAATCTCACATGG
*
18231341 GCATGGGAGAAGTGAAGGAAAACACACATGGCCTGGCGACATGGCCATGTGACCCACATAGCCTG
66 GCATGGGAGAAGTGAAGGAAAACACACATGGCCTGGCGACATGGCCATGTGACCCACACAGCCTG
* * *
18231406 GGCACACGGGCGTGTCCTAGGCCGTGTGAAACCCGGAGCTAATTTTTTTTCAAAGTTAGAGAGTT
131 GACACACGGGCATGTCCTAGGCCATGTGAAACCCGGAGCTAATTTTTTTTCAAAGTTAGAGAGTT
18231471 ACAC
196 ACAC
* * *
18231475 GGCCTGGCTACACGGGTGTGTGGAGCACACGGCCTGACCACATGGGCGTATGGAATTTCACATGG
1 GGCCTGGCCACACGGGTGTGTGGAGCACACGGCCTGACCACACGGGCGTATGGAATCTCACATGG
**
18231540 GTGTGGGAGAAGTGAAGGAAAACACACATGGCCTGGCGACATGGCCATGTGACCCACACAGCCTG
66 GCATGGGAGAAGTGAAGGAAAACACACATGGCCTGGCGACATGGCCATGTGACCCACACAGCCTG
* *
18231605 GACTCACGGGCATGTCC-ACGTCCATGTGAAA
131 GACACACGGGCATGTCCTA-GGCCATGTGAAA
18231636 ACTGGGTTAA
Statistics
Matches: 146, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
198 1 0.01
199 145 0.99
ACGTcount: A:0.24, C:0.25, G:0.32, T:0.18
Consensus pattern (199 bp):
GGCCTGGCCACACGGGTGTGTGGAGCACACGGCCTGACCACACGGGCGTATGGAATCTCACATGG
GCATGGGAGAAGTGAAGGAAAACACACATGGCCTGGCGACATGGCCATGTGACCCACACAGCCTG
GACACACGGGCATGTCCTAGGCCATGTGAAACCCGGAGCTAATTTTTTTTCAAAGTTAGAGAGTT
ACAC
Found at i:18231714 original size:22 final size:20
Alignment explanation
Indices: 18231656--18231707 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
18231646 TCACCCCCAA
*
18231656 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
*
18231676 TTTTAATTTTTGTATTATTTAT
1 TTTT-A-TTTTATATTATTTAT
18231698 TTTTATTTTA
1 TTTTATTTTA
18231708 CTAATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 8 0.30
21 2 0.07
22 17 0.63
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:18231884 original size:3 final size:3
Alignment explanation
Indices: 18231878--18231907 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
18231868 ATTATTGGGT
18231878 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18231908 CTTTCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:18235873 original size:12 final size:12
Alignment explanation
Indices: 18235856--18235880 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18235846 AGGCTGTTAT
18235856 ATGGCCTAGCAC
1 ATGGCCTAGCAC
18235868 ATGGCCTAGCAC
1 ATGGCCTAGCAC
18235880 A
1 A
18235881 CGGGCGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (12 bp):
ATGGCCTAGCAC
Found at i:18243245 original size:22 final size:22
Alignment explanation
Indices: 18243220--18243263 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18243210 ATCAGAACAG
*
18243220 GAGCCTGAGTTAGAACAGACTT
1 GAGCCTGAGTCAGAACAGACTT
*
18243242 GAGCCTGAGTCAGAATAGACTT
1 GAGCCTGAGTCAGAACAGACTT
18243264 AAGCTTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (22 bp):
GAGCCTGAGTCAGAACAGACTT
Found at i:18248367 original size:15 final size:15
Alignment explanation
Indices: 18248347--18248378 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18248337 TGAAAAAAAG
*
18248347 AGGAAATGTTAGGTT
1 AGGAAATGATAGGTT
18248362 AGGAAATGATAGGTT
1 AGGAAATGATAGGTT
18248377 AG
1 AG
18248379 TGGATTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (15 bp):
AGGAAATGATAGGTT
Found at i:18251970 original size:21 final size:22
Alignment explanation
Indices: 18251928--18251971 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
18251918 TTTAATAGCT
* **
18251928 CTCCAAATCCCTCTAATTACTC
1 CTCCAAATCCCTCAAAACACTC
18251950 CTCC-AATCCCTCAAAACACTC
1 CTCCAAATCCCTCAAAACACTC
18251971 C
1 C
18251972 CACTACCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.30, C:0.45, G:0.00, T:0.25
Consensus pattern (22 bp):
CTCCAAATCCCTCAAAACACTC
Found at i:18256917 original size:42 final size:42
Alignment explanation
Indices: 18256870--18256954 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
18256860 CCACAACCTC
* *
18256870 TAGTACCCCGTCCATGAGTACCACTTGCACTCATCGTGGATT
1 TAGTACCCCGTCCATGAGCACCACTTGCACTCATCGTAGATT
*
18256912 TAGTACCCCGTCCATGAGCAGCACTTGCACTCATCGTAGATT
1 TAGTACCCCGTCCATGAGCACCACTTGCACTCATCGTAGATT
18256954 T
1 T
18256955 CAGAATTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (42 bp):
TAGTACCCCGTCCATGAGCACCACTTGCACTCATCGTAGATT
Found at i:18265045 original size:20 final size:20
Alignment explanation
Indices: 18265022--18265090 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 20
18265012 AGTTCCGAAC
18265022 TCGTTGAGTTGAGTCCGAGT
1 TCGTTGAGTTGAGTCCGAGT
*
18265042 TCG-TGAGATGTAAGTAGGCATCCGAGC
1 TCGTTGAG-T-T--G-A-G--TCCGAGT
18265069 TCGTTGAGTTGAGTCCGAGT
1 TCGTTGAGTTGAGTCCGAGT
18265089 TC
1 TC
18265091 ACTTATGGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
19 4 0.11
20 12 0.32
21 1 0.03
22 1 0.03
23 2 0.05
24 2 0.05
25 1 0.03
26 1 0.03
27 10 0.26
28 4 0.11
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.30
Consensus pattern (20 bp):
TCGTTGAGTTGAGTCCGAGT
Found at i:18274800 original size:30 final size:29
Alignment explanation
Indices: 18274766--18274845 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 29
18274756 CTTCACAAGC
*
18274766 CACTCAATGAAACCATCCTTACCTAAGCAA
1 CACTCAAT-AAACCATCCTCACCTAAGCAA
18274796 CACTCCAATAAACCATCCTCACCTAAGCAA
1 CACT-CAATAAACCATCCTCACCTAAGCAA
18274826 CACTCTAATAAACCATCCTC
1 CACTC-AATAAACCATCCTC
18274846 TTCACCGACT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
29 1 0.02
30 42 0.89
31 4 0.09
ACGTcount: A:0.39, C:0.38, G:0.04, T:0.20
Consensus pattern (29 bp):
CACTCAATAAACCATCCTCACCTAAGCAA
Found at i:18275845 original size:21 final size:18
Alignment explanation
Indices: 18275805--18275840 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18275795 CTTCCTACTT
18275805 GTTCATCATTACAAATAA
1 GTTCATCATTACAAATAA
18275823 GTTCATCATTACAAATAA
1 GTTCATCATTACAAATAA
18275841 TAAGTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
GTTCATCATTACAAATAA
Found at i:18277838 original size:69 final size:69
Alignment explanation
Indices: 18277727--18277864 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
18277717 GCGTTTTTTA
** * *
18277727 AAAAAACGCCGCTAAAGACCATGACTTTTAGCGGTGTTTTTTTCTCAAACGTCGCCAAAAACCAC
1 AAAAAACGCCGCTAAAGACCATGACTTTTAGCGACGCTTTTTTCTCAAACGTCCCCAAAAACCAC
18277792 AACT
66 AACT
18277796 AAAAAACGCCGCTAAAGACCATGACTTTTAGCGACGCTTTTTTCTCAAACGTCCCCAAAAACCAC
1 AAAAAACGCCGCTAAAGACCATGACTTTTAGCGACGCTTTTTTCTCAAACGTCCCCAAAAACCAC
18277861 AACT
66 AACT
18277865 CTTAGCGGCA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (69 bp):
AAAAAACGCCGCTAAAGACCATGACTTTTAGCGACGCTTTTTTCTCAAACGTCCCCAAAAACCAC
AACT
Found at i:18277949 original size:41 final size:42
Alignment explanation
Indices: 18277799--18277943 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 42
18277789 CACAACTAAA
* * * * *
18277799 AAACGCCGCTAAAGACCATGACTTTTAGCGACGCTTTTTTCTC
1 AAACGCCGCTAAAAACCACGAC-TCTAGCGACGCTTTTCTCAC
* * * * *
18277842 AAACGTCC-CCAAAAACCACAACTCTTAGCGGCAC-TTTCTTCGC
1 AAACG-CCGCTAAAAACCACGACTC-TAGCGACGCTTTTC-TCAC
* *
18277885 AAGCGCCGCTAAAGACCACGAC-CTAGCGACGCTTTTCTCAC
1 AAACGCCGCTAAAAACCACGACTCTAGCGACGCTTTTCTCAC
*
18277926 AAACGCCACTAAAAACCA
1 AAACGCCGCTAAAAACCA
18277944 TGACCTTTAA
Statistics
Matches: 78, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
41 25 0.32
42 11 0.14
43 40 0.51
44 2 0.03
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTAAAAACCACGACTCTAGCGACGCTTTTCTCAC
Found at i:18282385 original size:21 final size:22
Alignment explanation
Indices: 18282356--18282419 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
18282346 ATTTTAGTCC
* *
18282356 CTTCATCTTCACTC-TCTTTTT
1 CTTCCTCTTCACTCTTCTTCTT
*
18282377 CTTCCTCTTC-TTCTTCTTCTT
1 CTTCCTCTTCACTCTTCTTCTT
18282398 CTTCCTCGTTCAC-CTTC-TCTT
1 CTTCCTC-TTCACTCTTCTTCTT
18282419 C
1 C
18282420 AACATCTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 2 0.06
21 27 0.75
22 7 0.19
ACGTcount: A:0.05, C:0.39, G:0.02, T:0.55
Consensus pattern (22 bp):
CTTCCTCTTCACTCTTCTTCTT
Found at i:18283163 original size:14 final size:14
Alignment explanation
Indices: 18283125--18283170 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
18283115 CACTAAAAAC
18283125 TAAACCTTAAACCA
1 TAAACCTTAAACCA
**
18283139 TAAGTCTTAAACCA
1 TAAACCTTAAACCA
* *
18283153 TAAACCCTAAACTA
1 TAAACCTTAAACCA
18283167 TAAA
1 TAAA
18283171 TATAATTAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:18283995 original size:41 final size:41
Alignment explanation
Indices: 18283937--18284202 Score: 334
Period size: 41 Copynumber: 6.5 Consensus size: 41
18283927 GGTTATATGA
* * * * *
18283937 CTTTTAGTGGCGTTTTACCAAAAGTGCCGCTAATGATTTGG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
* *
18283978 TTTTTAGTGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
* *
18284019 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAGTGCTCTGG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
* * *
18284060 CTTATAGCGGCGTTTTACAAAAAGCACTGCTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
* * *
18284101 CTTCTAGCGGCTTTTTACAAAAAGTGCCGCTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
* * * * **
18284142 CTTCTAGCGGCGTTTTACTAAAAGCGTCGCTAATGCTTTAA
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
*
18284183 TTTTTAGCGGCGTTTTACAA
1 CTTTTAGCGGCGTTTTACAA
18284203 TTTTTGCGGC
Statistics
Matches: 196, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 196 1.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.33
Consensus pattern (41 bp):
CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
Found at i:18284211 original size:19 final size:20
Alignment explanation
Indices: 18284181--18284218 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
18284171 CTAATGCTTT
18284181 AATTTTTAGCGGCGTTTTAC
1 AATTTTTAGCGGCGTTTTAC
18284201 AATTTTT-GCGGCGTTTTA
1 AATTTTTAGCGGCGTTTTA
18284219 TGAAGCCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.18, C:0.13, G:0.21, T:0.47
Consensus pattern (20 bp):
AATTTTTAGCGGCGTTTTAC
Found at i:18284532 original size:23 final size:25
Alignment explanation
Indices: 18284497--18284549 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
18284487 AATTATTAAC
18284497 ATAAAAAATATATATAAGTACAATA
1 ATAAAAAATATATATAAGTACAATA
18284522 ATAAAAAATATATATAAGTACAATA
1 ATAAAAAATATATATAAGTACAATA
18284547 ATA
1 ATA
18284550 TTTCTTCCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (25 bp):
ATAAAAAATATATATAAGTACAATA
Found at i:18284550 original size:16 final size:15
Alignment explanation
Indices: 18284503--18284550 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
18284493 TAACATAAAA
18284503 AATATATATAAGTAC
1 AATATATATAAGTAC
18284518 AATA-ATA-AA--A-
1 AATATATATAAGTAC
18284528 AATATATATAAGTAC
1 AATATATATAAGTAC
18284543 AATA-ATAT
1 AATATATAT
18284551 TTCTTCCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
10 4 0.14
11 4 0.14
12 2 0.07
13 2 0.07
14 8 0.29
15 8 0.29
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (15 bp):
AATATATATAAGTAC
Found at i:18288415 original size:143 final size:143
Alignment explanation
Indices: 18288223--18288556 Score: 461
Period size: 143 Copynumber: 2.3 Consensus size: 143
18288213 GTTTGCAGCC
* * ** * * *** * *
18288223 TTCAATCTGCTTCACTGTAACTTCAAGAAGATAAGATTTGTCATAATTTGTAGCTTTAATCTGTC
1 TTCAATCTCCTCCACTGCGACTTCAGGGAGATAAGATTCACCATGATTTGTAACTTTAATCTGTC
* * * * *
18288288 CCACTATAACTTCAGGGGAATGAGATCCGTTATCTTTAGTCTGCTCCGCTGTAATTTTAGGGAGA
66 CCACTACAACTTCAAGGGAATGAGATCCGTTATCTTTAGTCTGCTCCGCTGCAACTTCAGGGAGA
18288353 TAAGACTTGTGGA
131 TAAGACTTGTGGA
* * *
18288366 TTCAATCTGCTCCATTGCGGCTTCAGGGAGATAAGATTCACCATGATTTGTAACTTTAATCTGTC
1 TTCAATCTCCTCCACTGCGACTTCAGGGAGATAAGATTCACCATGATTTGTAACTTTAATCTGTC
*
18288431 CCACTACAACTTCAAGGGAATGAGATTCGTTATCTTTAGTCTGCTCCGCTGCAACTTCAGGGAGA
66 CCACTACAACTTCAAGGGAATGAGATCCGTTATCTTTAGTCTGCTCCGCTGCAACTTCAGGGAGA
*
18288496 TAAGACTTGTGGC
131 TAAGACTTGTGGA
* *
18288509 TTCAATCTCCTCCACTGTGACTTCTGGGAGATAAGATTCACCATGATT
1 TTCAATCTCCTCCACTGCGACTTCAGGGAGATAAGATTCACCATGATT
18288557 ACTCAATCTG
Statistics
Matches: 167, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
143 167 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (143 bp):
TTCAATCTCCTCCACTGCGACTTCAGGGAGATAAGATTCACCATGATTTGTAACTTTAATCTGTC
CCACTACAACTTCAAGGGAATGAGATCCGTTATCTTTAGTCTGCTCCGCTGCAACTTCAGGGAGA
TAAGACTTGTGGA
Found at i:18291802 original size:39 final size:40
Alignment explanation
Indices: 18291702--18291886 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
18291692 TTGAATGATG
* * *
18291702 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
18291741 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
18291782 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
18291821 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
18291860 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
18291887 AATGAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 35 0.29
40 75 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:18291908 original size:79 final size:79
Alignment explanation
Indices: 18291758--18291909 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
18291748 CTAAGATCCG
** **
18291758 AAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
18291823 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * * *
18291837 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGCTAT
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
18291900 ATCC-GGTTAA
63 ATCCGGGTTAA
18291910 ATTCTGAAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 36 0.58
80 24 0.39
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAGTCCCA
Found at i:18299773 original size:39 final size:40
Alignment explanation
Indices: 18299673--18299857 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
18299663 TTGAATGATG
* * *
18299673 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
18299712 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
18299753 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
18299792 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
18299831 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
18299858 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:18299813 original size:79 final size:81
Alignment explanation
Indices: 18299673--18299857 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
18299663 TTGAATGATG
* *
18299673 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
18299737 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
18299752 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
18299814 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
18299832 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18299858 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:18299879 original size:79 final size:79
Alignment explanation
Indices: 18299726--18299890 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
18299716 GGACTAAGAT
* **
18299726 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
18299791 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
18299805 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
18299868 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
18299884 CCGAAGG
1 CCGAAGG
18299891 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:18313375 original size:24 final size:24
Alignment explanation
Indices: 18313346--18313398 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
18313336 ATTTGCGTTC
*
18313346 ATTTTTA-AAATTTATTAAATAATAT
1 ATTTTTATAAA-TTATAAAAT-ATAT
18313371 ATTTTTATAAATTATAAAATATAT
1 ATTTTTATAAATTATAAAATATAT
18313395 ATTT
1 ATTT
18313399 ACTAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.31
25 15 0.58
26 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTTTATAAATTATAAAATATAT
Found at i:18315186 original size:11 final size:11
Alignment explanation
Indices: 18315148--18315190 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
18315138 ATAATAACAA
18315148 CAAAATAGTAG
1 CAAAATAGTAG
*
18315159 CAACATAGTAG
1 CAAAATAGTAG
** *
18315170 TGAAATGGTAG
1 CAAAATAGTAG
18315181 CAAAATAGTA
1 CAAAATAGTA
18315191 ATAAAAAAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:18316810 original size:49 final size:49
Alignment explanation
Indices: 18316691--18316918 Score: 193
Period size: 49 Copynumber: 4.8 Consensus size: 49
18316681 CGAGATATAC
* * * *
18316691 AAGCTAGTGTAAAACCTGTCTGGGACATGGCATCAGC-TTG-T-TATG-
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACATTGATAGATGA
* * * * *
18316736 -TGTCAATGTAAGACCTGTGTGGGACATGGCATCAACACTGATAGATGA
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACATTGATAGATGA
* * * * *
18316784 GAGCCAGTGTAAGACCTGTCTTGGACATGGCATCGACATTGTTATATGA
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACATTGATAGATGA
** * * *
18316833 AATTCAGTGTAAGACATGTCTGGGACATGGCATCGAC-TTGAT-G-TGT
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACATTGATAGATGA
* * *
18316879 TAGCCAGTGAAAGACCATGTCTAGGACATGGCATCAACAT
1 AAGCCAGTGTAAGACC-TGTCTGGGACATGGCATCAACAT
18316919 CTTATCCCAT
Statistics
Matches: 143, Mismatches: 33, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
44 29 0.20
45 2 0.01
46 14 0.10
47 22 0.15
48 5 0.03
49 71 0.50
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (49 bp):
AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACATTGATAGATGA
Found at i:18316810 original size:93 final size:93
Alignment explanation
Indices: 18316696--18316918 Score: 240
Period size: 98 Copynumber: 2.4 Consensus size: 93
18316686 TATACAAGCT
* * * * *
18316696 AGTGTAAAACCTGTCTGGGACATGGCATCAG-C-TTGTTATGTG-TCAATGTAAGACCTGTGTGG
1 AGTGTAAGACCTGTCTAGGACATGGCATCAGACATTGTTATATGATCAATGTAAGACATGTCTGG
18316758 GACATGGCATCAACACTGATAGATGAGAGCC
66 GACATGGCATCAAC-CTGAT-G-TGAGAGCC
* *
18316789 AGTGTAAGACCTGTCTTGGACATGGCATC-GACATTGTTATATGAAATTCAGTGTAAGACATGTC
1 AGTGTAAGACCTGTCTAGGACATGGCATCAGACATTGTTATATG--A-TCAATGTAAGACATGTC
* * **
18316853 TGGGACATGGCATCGACTTGATGTGTTAGCC
63 TGGGACATGGCATCAACCTGATGTGAGAGCC
*
18316884 AGTGAAAGACCATGTCTAGGACATGGCATCA-ACAT
1 AGTGTAAGACC-TGTCTAGGACATGGCATCAGACAT
18316919 CTTATCCCAT
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
92 1 0.01
93 28 0.25
94 9 0.08
95 16 0.15
96 22 0.20
97 4 0.04
98 30 0.27
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (93 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCAGACATTGTTATATGATCAATGTAAGACATGTCTGG
GACATGGCATCAACCTGATGTGAGAGCC
Found at i:18318712 original size:29 final size:28
Alignment explanation
Indices: 18318670--18318742 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
18318660 AAGTTAGGAA
18318670 AAAATATTAAAAAAT-ATATAAAAATTGT
1 AAAATATTAAAAAATCAT-TAAAAATTGT
* *
18318698 AAAATTTTATAAAAATCATTAAAGATTGT
1 AAAATATTA-AAAAATCATTAAAAATTGT
18318727 AAAATGCATTAAAAAA
1 AAAAT--ATTAAAAAA
18318743 CCCCTTTAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
28 8 0.21
29 20 0.53
30 7 0.18
31 3 0.08
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (28 bp):
AAAATATTAAAAAATCATTAAAAATTGT
Found at i:18319035 original size:19 final size:19
Alignment explanation
Indices: 18318915--18319108 Score: 79
Period size: 19 Copynumber: 10.5 Consensus size: 19
18318905 TTTTGGCACG
18318915 ATAATTTTTATAATTTCTTTT
1 ATAATTTTTATAA-TT-TTTT
18318936 ATGAA-TTTTAT-ATTTCTTT
1 AT-AATTTTTATAATTT-TTT
*
18318955 ACAATTTTTATAATTTTCTT
1 ATAATTTTTATAATTTT-TT
** **
18318975 GCAA-TTTTATAAAATTTT
1 ATAATTTTTATAATTTTTT
* * *
18318993 AAAACTTCTAT-A-TTTTT
1 ATAATTTTTATAATTTTTT
***
18319010 GCGATTTTTATAATTTTTT
1 ATAATTTTTATAATTTTTT
*
18319029 ATAA-TTTT-TAATAGTTTT
1 ATAATTTTTATAAT-TTTTT
** *
18319047 AT-ATTTTTATTAAAATTTA
1 ATAATTTTTA-TAATTTTTT
*
18319066 AT-ATTTTTATAA-CTTTT
1 ATAATTTTTATAATTTTTT
* *
18319083 ATTATTTTT-T-ATTATTT
1 ATAATTTTTATAATTTTTT
18319100 ATAATTTTT
1 ATAATTTTT
18319109 TTCTACATGT
Statistics
Matches: 134, Mismatches: 25, Indels: 32
0.70 0.13 0.17
Matches are distributed among these distances:
16 1 0.01
17 32 0.24
18 32 0.24
19 46 0.34
20 13 0.10
21 8 0.06
22 2 0.01
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (19 bp):
ATAATTTTTATAATTTTTT
Found at i:18319046 original size:10 final size:9
Alignment explanation
Indices: 18318915--18319108 Score: 73
Period size: 9 Copynumber: 21.0 Consensus size: 9
18318905 TTTTGGCACG
18318915 ATAATTTTT
1 ATAATTTTT
18318924 ATAATTTCTTTT
1 ATAA--T-TTTT
18318936 ATGAA-TTTT
1 AT-AATTTTT
*
18318945 ATATTTCTTT
1 ATAATT-TTT
*
18318955 ACAATTTTT
1 ATAATTTTT
18318964 ATAATTTTCT
1 ATAATTTT-T
18318974 -TGCAA-TTTT
1 AT--AATTTTT
*
18318983 ATAAAATTTT
1 AT-AATTTTT
* * *
18318993 AAAACTTCT
1 ATAATTTTT
18319002 AT-ATTTTT
1 ATAATTTTT
***
18319010 GCGATTTTT
1 ATAATTTTT
18319019 ATAATTTTTT
1 ATAA-TTTTT
18319029 ATAATTTTT
1 ATAATTTTT
*
18319038 A-ATAGTTTT
1 ATA-ATTTTT
18319047 AT-ATTTTT
1 ATAATTTTT
**
18319055 ATTAAAATTT
1 A-TAATTTTT
18319065 A-ATATTTTT
1 ATA-ATTTTT
*
18319074 ATAACTTTT
1 ATAATTTTT
*
18319083 ATTATTTTT
1 ATAATTTTT
18319092 -T-ATTATTT
1 ATAATT-TTT
18319100 ATAATTTTT
1 ATAATTTTT
18319109 TTCTACATGT
Statistics
Matches: 138, Mismatches: 25, Indels: 44
0.67 0.12 0.21
Matches are distributed among these distances:
7 3 0.02
8 17 0.12
9 72 0.52
10 35 0.25
11 3 0.02
12 6 0.04
13 2 0.01
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:18319292 original size:17 final size:17
Alignment explanation
Indices: 18319270--18319307 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
18319260 ATGCAAGGGC
18319270 TTAATTTTTTTTTAAGT
1 TTAATTTTTTTTTAAGT
18319287 TTAATTTTTTTTTAAGT
1 TTAATTTTTTTTTAAGT
18319304 TTAA
1 TTAA
18319308 GGGCATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
TTAATTTTTTTTTAAGT
Found at i:18322837 original size:16 final size:16
Alignment explanation
Indices: 18322816--18322851 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18322806 TTCCAAAATA
18322816 TTTTTTCTTTCACATT
1 TTTTTTCTTTCACATT
* *
18322832 TTTTTTGTTTCATATT
1 TTTTTTCTTTCACATT
18322848 TTTT
1 TTTT
18322852 ACTAAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTTTTCTTTCACATT
Found at i:18327389 original size:24 final size:22
Alignment explanation
Indices: 18327358--18327412 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 22
18327348 AATAAACCCG
*
18327358 AAAAAGAAA-ATGAAAGAAAGTA
1 AAAAAGAAATAT-AAACAAAGTA
18327380 AAGTAAAGAAATATAAACAAAGTA
1 AA--AAAGAAATATAAACAAAGTA
18327404 AAAAAGAAA
1 AAAAAGAAA
18327413 GAAGGGACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 9 0.31
24 18 0.62
25 2 0.07
ACGTcount: A:0.73, C:0.02, G:0.15, T:0.11
Consensus pattern (22 bp):
AAAAAGAAATATAAACAAAGTA
Found at i:18328038 original size:31 final size:31
Alignment explanation
Indices: 18328003--18328099 Score: 76
Period size: 31 Copynumber: 3.2 Consensus size: 31
18327993 ACAAAAAAAT
* *
18328003 TAAAATAATTTT-CAAAAATTCAAAATATTTA
1 TAAAAT-ATTTTAAAAAAATTAAAAATATTTA
* *
18328034 TAAAATTTTTTAAAAAAATTAAAAATATATA
1 TAAAATATTTTAAAAAAATTAAAAATATTTA
* * * *
18328065 GAGAA-A-GTTAAAAAAA-TAAAAATTTTTA
1 TAAAATATTTTAAAAAAATTAAAAATATTTA
*
18328093 TAGAATA
1 TAAAATA
18328100 ATAATTTTAG
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
28 14 0.26
29 10 0.19
30 4 0.08
31 25 0.47
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (31 bp):
TAAAATATTTTAAAAAAATTAAAAATATTTA
Found at i:18335811 original size:14 final size:14
Alignment explanation
Indices: 18335792--18335819 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18335782 TTTATTTTAT
18335792 AAAAAATTAATATA
1 AAAAAATTAATATA
18335806 AAAAAATTAATATA
1 AAAAAATTAATATA
18335820 GGTGGATCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAATTAATATA
Found at i:18342042 original size:15 final size:15
Alignment explanation
Indices: 18342017--18342087 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
18342007 GAGATGACAT
*
18342017 GAAAACCAAGACAAA
1 GAAATCCAAGACAAA
*
18342032 GAAGTCCAAGACAAA
1 GAAATCCAAGACAAA
* *
18342047 GAAATCCTAGATAAA
1 GAAATCCAAGACAAA
*
18342062 GAAATCCAAGATACAA
1 GAAATCCAAGACA-AA
18342078 -AAATCCAAGA
1 GAAATCCAAGA
18342088 TACAATATCA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
15 47 0.96
16 2 0.04
ACGTcount: A:0.58, C:0.18, G:0.14, T:0.10
Consensus pattern (15 bp):
GAAATCCAAGACAAA
Found at i:18344067 original size:21 final size:21
Alignment explanation
Indices: 18344023--18344067 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
18344013 CTAAATCGAG
* * *
18344023 AACTTTGAAAAGTTTTGAAAA
1 AACTTAGAAAAATTTTCAAAA
*
18344044 AACTTAGAAAAATTTTCAAGA
1 AACTTAGAAAAATTTTCAAAA
18344065 AAC
1 AAC
18344068 AGGGTCACAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (21 bp):
AACTTAGAAAAATTTTCAAAA
Found at i:18353188 original size:21 final size:21
Alignment explanation
Indices: 18353164--18353205 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18353154 TGGACTTCAC
18353164 GAACAGGAGATAAATGAATCA
1 GAACAGGAGATAAATGAATCA
18353185 GAACAGGAGATAAATGAATCA
1 GAACAGGAGATAAATGAATCA
18353206 TTCCCTGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.24, T:0.14
Consensus pattern (21 bp):
GAACAGGAGATAAATGAATCA
Found at i:18356011 original size:40 final size:40
Alignment explanation
Indices: 18355974--18356105 Score: 178
Period size: 40 Copynumber: 3.3 Consensus size: 40
18355964 GCTACTCGTT
* *
18355974 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
18356014 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
18356054 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
18356093 CAAATGCCTTCGG
1 CAAATGCCTTCGG
18356106 ATCTTAGTCC
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
39 35 0.41
40 48 0.56
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:18356091 original size:79 final size:82
Alignment explanation
Indices: 18355974--18356158 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
18355964 GCTACTCGTT
* * *
18355974 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
18356037 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
18356054 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
18356117 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
18356134 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18356159 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:18358811 original size:13 final size:14
Alignment explanation
Indices: 18358792--18358825 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
18358782 TTATTCCTAC
18358792 TTCTTCTTTTCTAT
1 TTCTTCTTTTCTAT
18358806 TT-TTCTTTTCTAT
1 TTCTTCTTTTCTAT
18358819 TTCTTCT
1 TTCTTCT
18358826 CCTCTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (14 bp):
TTCTTCTTTTCTAT
Found at i:18358849 original size:28 final size:27
Alignment explanation
Indices: 18358803--18358856 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
18358793 TCTTCTTTTC
*
18358803 TATTTTTCTTTTCTATTTCTTCTCCTCT
1 TATTTTTCTTCTCTATTTCTTC-CCTCT
18358831 TATTTTTCCTTCTCT-TTTCTTCCCTC
1 TATTTTT-CTTCTCTATTTCTTCCCTC
18358857 CCTTTTCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 14 0.58
29 6 0.25
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.65
Consensus pattern (27 bp):
TATTTTTCTTCTCTATTTCTTCCCTCT
Found at i:18360542 original size:17 final size:17
Alignment explanation
Indices: 18360522--18360561 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
18360512 AGTCCATTTA
*
18360522 ATTTTTAATTTGTTTTT
1 ATTTTTAATTTATTTTT
**
18360539 ATTTTTCTTTTATTTTT
1 ATTTTTAATTTATTTTT
18360556 ATTTTT
1 ATTTTT
18360562 TGCGTTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (17 bp):
ATTTTTAATTTATTTTT
Found at i:18369637 original size:46 final size:46
Alignment explanation
Indices: 18369584--18369802 Score: 246
Period size: 46 Copynumber: 4.7 Consensus size: 46
18369574 TGGTTGAGCA
18369584 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
* *
18369630 TCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATACAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
* * * * * * *
18369676 TCCGAACTCATTGAGTTGAGTTCGAGTTC-GTGAGATGTA-AC-TAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACAAATG
* * * *
18369721 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
* *
18369769 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18369803 GGGGCGGGTT
Statistics
Matches: 146, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
45 3 0.02
46 107 0.73
47 33 0.23
48 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
Found at i:18374524 original size:32 final size:32
Alignment explanation
Indices: 18374488--18374552 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
18374478 TGTAAGCATT
*
18374488 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAACGGATGATGGGCA
18374520 TTAGCATTTTAATAGTTAACGGATGATGGGCA
1 TTAGCATTTTAATAGTTAACGGATGATGGGCA
18374552 T
1 T
18374553 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAACGGATGATGGGCA
Found at i:18380097 original size:42 final size:43
Alignment explanation
Indices: 18380050--18380163 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
18380040 GGACTACCGA
*
18380050 GATTTCGTATAAGACCATATCTAGGATATGACATCAGTAT-AT
1 GATTTCGTATAAGACCATATCTAGGATATGACATCAATATGAT
* * * *
18380092 GATTTCGTATAAGACCATGTC-AGGGACATGGCGTCAATATGAT
1 GATTTCGTATAAGACCATATCTA-GGATATGACATCAATATGAT
* *
18380135 -ATTTCATGTAAGACCATATCTAGGATATG
1 GATTTCGTATAAGACCATATCTAGGATATG
18380164 GCATTGACAT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.02
42 56 0.93
43 3 0.05
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (43 bp):
GATTTCGTATAAGACCATATCTAGGATATGACATCAATATGAT
Found at i:18385720 original size:6 final size:6
Alignment explanation
Indices: 18385702--18385740 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
18385692 AGGTTTCCAA
18385702 AAATGG AAAATGG AAATGG AAAT-G AAATGG AAATGG AAA
1 AAATGG -AAATGG AAATGG AAATGG AAATGG AAATGG AAA
18385741 CTTGTAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:18385730 original size:11 final size:11
Alignment explanation
Indices: 18385702--18385736 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
18385692 AGGTTTCCAA
18385702 AAATGGAAAATGG
1 AAATGG-AAAT-G
18385715 AAATGGAAATG
1 AAATGGAAATG
18385726 AAATGGAAATG
1 AAATGGAAATG
18385737 GAAACTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.55
12 4 0.18
13 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (11 bp):
AAATGGAAATG
Found at i:18385926 original size:26 final size:25
Alignment explanation
Indices: 18385882--18385952 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 25
18385872 TATTTTCTTG
* *
18385882 AAATTTTACT-AGGGCAAAATTGTCA
1 AAATTTTA-TAAGGGTAAAATCGTCA
*
18385907 AAATTTTATAAAGGGTAAAATCGTTA
1 AAATTTTAT-AAGGGTAAAATCGTCA
* *
18385933 AAATTTTGTCAGGGTAAAAT
1 AAATTTTATAAGGGTAAAAT
18385953 AGAGATGAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 18 0.46
26 20 0.51
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (25 bp):
AAATTTTATAAGGGTAAAATCGTCA
Found at i:18388251 original size:45 final size:45
Alignment explanation
Indices: 18388057--18388266 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 45
18388047 TGATTCTATC
* * * * * * *
18388057 AAGACCATAGCTGAAAGACGCTATGGCATCATGAAT-CAAAGAAAT
1 AAGACCATGGTTGAAAGACACTATGGCAACACG-ATGAAAATAAAT
* * * * *
18388102 AAGACCATAGTTGAAAGAAACTATGGCAACACAACGGAAAATGAAT
1 AAGACCATGGTTGAAAGACACTATGGCAACACGA-TGAAAATAAAT
** * *
18388148 AAGACTGTGGTTGAAAAACACTATGGCAACACGACGAAAAATAAAT
1 AAGACCATGGTTGAAAGACACTATGGCAACACGATG-AAAATAAAT
* * *
18388194 AAGACCATGGTTGAAAGACACTATGGCATCACGATGAGAATAACT
1 AAGACCATGGTTGAAAGACACTATGGCAACACGATGAAAATAAAT
* *
18388239 AAGACCATGGTTGAAAGATACCATGGCA
1 AAGACCATGGTTGAAAGACACTATGGCA
18388267 CACTCCGATC
Statistics
Matches: 135, Mismatches: 27, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
44 1 0.01
45 61 0.45
46 73 0.54
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.18
Consensus pattern (45 bp):
AAGACCATGGTTGAAAGACACTATGGCAACACGATGAAAATAAAT
Found at i:18390374 original size:29 final size:29
Alignment explanation
Indices: 18390329--18390492 Score: 109
Period size: 29 Copynumber: 5.7 Consensus size: 29
18390319 GTCCTGACGA
* * **
18390329 ACTTTATCTTC-TATTTATTATCCTAGTGG
1 ACTTTATC-TCGTGTTTACTATCCTAGCAG
* * *
18390358 ATTTTATCTCGTGTTTACTGTCCCAGCAG
1 ACTTTATCTCGTGTTTACTATCCTAGCAG
* *
18390387 ACTTTATCTCTTGTTTACTATCCTTA-CTG
1 ACTTTATCTCGTGTTTACTATCC-TAGCAG
* * * *
18390416 ACTTTATCCCATGTTTACTAT-CTTGACAA
1 ACTTTATCTCGTGTTTACTATCCTAG-CAG
* * * * *
18390445 ACTTTATCTCATGTTTACTGTCCCATCAA
1 ACTTTATCTCGTGTTTACTATCCTAGCAG
*
18390474 ACTTTATCCCGTGTTTACT
1 ACTTTATCTCGTGTTTACT
18390493 GTCTCGATGA
Statistics
Matches: 106, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
27 1 0.01
28 3 0.03
29 100 0.94
30 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.46
Consensus pattern (29 bp):
ACTTTATCTCGTGTTTACTATCCTAGCAG
Found at i:18390422 original size:58 final size:59
Alignment explanation
Indices: 18390360--18390495 Score: 143
Period size: 58 Copynumber: 2.3 Consensus size: 59
18390350 CCTAGTGGAT
* * * * **
18390360 TTTATCTCGTGTTTACTGTCCCAG-CAGACTTTATCTCTTGTTTACTAT-CCTTACTGAC
1 TTTATCCCGTGTTTACTGTCCCAGACAAACTTTATCTCATGTTTACTATCCCAT-CAAAC
* * ** *
18390418 TTTATCCCATGTTTACTAT-CTTGACAAACTTTATCTCATGTTTACTGTCCCATCAAAC
1 TTTATCCCGTGTTTACTGTCCCAGACAAACTTTATCTCATGTTTACTATCCCATCAAAC
18390476 TTTATCCCGTGTTTACTGTC
1 TTTATCCCGTGTTTACTGTC
18390496 TCGATGAACT
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
57 2 0.03
58 57 0.92
59 3 0.05
ACGTcount: A:0.20, C:0.26, G:0.10, T:0.44
Consensus pattern (59 bp):
TTTATCCCGTGTTTACTGTCCCAGACAAACTTTATCTCATGTTTACTATCCCATCAAAC
Found at i:18390493 original size:29 final size:29
Alignment explanation
Indices: 18390360--18390495 Score: 114
Period size: 29 Copynumber: 4.7 Consensus size: 29
18390350 CCTAGTGGAT
* * *
18390360 TTTATCTCGTGTTTACTGTCCCAGCAGAC
1 TTTATCTCATGTTTACTGTCCCATCAAAC
* * * **
18390389 TTTATCTCTTGTTTACTAT-CCTTACTGAC
1 TTTATCTCATGTTTACTGTCCCAT-CAAAC
* * **
18390418 TTTATCCCATGTTTACTATCTTGA-CAAAC
1 TTTATCTCATGTTTACTGTC-CCATCAAAC
18390447 TTTATCTCATGTTTACTGTCCCATCAAAC
1 TTTATCTCATGTTTACTGTCCCATCAAAC
* *
18390476 TTTATCCCGTGTTTACTGTC
1 TTTATCTCATGTTTACTGTC
18390496 TCGATGAACT
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
28 3 0.04
29 82 0.96
ACGTcount: A:0.20, C:0.26, G:0.10, T:0.44
Consensus pattern (29 bp):
TTTATCTCATGTTTACTGTCCCATCAAAC
Found at i:18390505 original size:29 final size:29
Alignment explanation
Indices: 18390416--18390505 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
18390406 ATCCTTACTG
* * *
18390416 ACTTTATCCCATGTTTACTATCTTGACAA
1 ACTTTATCCCATGTTTACTGTCTCGATAA
* *
18390445 ACTTTATCTCATGTTTACTGTC-CCATCAA
1 ACTTTATCCCATGTTTACTGTCTCGAT-AA
* *
18390474 ACTTTATCCCGTGTTTACTGTCTCGATGA
1 ACTTTATCCCATGTTTACTGTCTCGATAA
18390503 ACT
1 ACT
18390506 ATTTATGTAG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
28 1 0.02
29 46 0.92
30 3 0.06
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (29 bp):
ACTTTATCCCATGTTTACTGTCTCGATAA
Found at i:18392637 original size:21 final size:21
Alignment explanation
Indices: 18392613--18392652 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18392603 TAAATAATTT
*
18392613 TTTTTATAATTTTTGAAAAGA
1 TTTTTATAATTTTTAAAAAGA
*
18392634 TTTTTATACTTTTTAAAAA
1 TTTTTATAATTTTTAAAAA
18392653 AAATTAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTTTATAATTTTTAAAAAGA
Found at i:18392646 original size:20 final size:21
Alignment explanation
Indices: 18392613--18392651 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
18392603 TAAATAATTT
*
18392613 TTTTTATAATTTTTGAAAAGA
1 TTTTTATAACTTTTGAAAAGA
*
18392634 TTTTTAT-ACTTTTTAAAA
1 TTTTTATAACTTTTGAAAA
18392652 AAAATTAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTTATAACTTTTGAAAAGA
Found at i:18395141 original size:20 final size:20
Alignment explanation
Indices: 18395112--18395155 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
18395102 AAATGAGTTT
18395112 TGTT-TACGTATCTGATTTG
1 TGTTCTACGTATCTGATTTG
18395131 TGTTCTACGTATCTGATTTG
1 TGTTCTACGTATCTGATTTG
18395151 TGTTC
1 TGTTC
18395156 AGGCTATTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TGTTCTACGTATCTGATTTG
Found at i:18415578 original size:40 final size:40
Alignment explanation
Indices: 18415524--18415641 Score: 209
Period size: 40 Copynumber: 3.0 Consensus size: 40
18415514 CGAATGTAAC
* *
18415524 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
18415564 AACCCGCACGAATGCCTTCGGGACTTAACCCAGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
18415604 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
18415642 TTTTTTTTCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:18418128 original size:10 final size:10
Alignment explanation
Indices: 18418098--18418155 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 10
18418088 TTAAATTCTA
*
18418098 AAAGATAAAT
1 AAAGATAATT
18418108 ACAA-ATAATT
1 A-AAGATAATT
*
18418118 AAAGATTATT
1 AAAGATAATT
18418128 AAAGATAATT
1 AAAGATAATT
*
18418138 AAAGATAAAT
1 AAAGATAATT
*
18418148 AAAAATAA
1 AAAGATAA
18418156 ATCCTAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
9 2 0.05
10 37 0.90
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (10 bp):
AAAGATAATT
Found at i:18418155 original size:20 final size:20
Alignment explanation
Indices: 18418098--18418155 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
18418088 TTAAATTCTA
*
18418098 AAAGATAAATACAAATAATT
1 AAAGATAAATAAAAATAATT
* * *
18418118 AAAGATTATTAAAGATAATT
1 AAAGATAAATAAAAATAATT
18418138 AAAGATAAATAAAAATAA
1 AAAGATAAATAAAAATAA
18418156 ATCCTAAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:18418207 original size:14 final size:13
Alignment explanation
Indices: 18418171--18418208 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
18418161 AAATTTAAAT
18418171 CTAAATAATTATC
1 CTAAATAATTATC
*
18418184 CTTAATAATTATC
1 CTAAATAATTATC
18418197 CTAATATAATTA
1 CTAA-ATAATTA
18418209 AATATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:18426232 original size:69 final size:69
Alignment explanation
Indices: 18426150--18426286 Score: 229
Period size: 69 Copynumber: 2.0 Consensus size: 69
18426140 TATGTTCACG
* * *
18426150 AATCATGTTTTGAGTGTATATTTAAGTAAAGGAAGCTTTATTCTATGCAAACCGTACTGTGTGGG
1 AATCATGTTTTGAGTGCATATTTAAGTAAAGGAAGCTTTATTCTATGCAAACCGAACTATGTGGG
18426215 ATCA
66 ATCA
* *
18426219 AATCATGTTTTGAGTGCATATTTAAGTTAGGGAAGCTTTATTCTATGCAAACCGAACTATGTGGG
1 AATCATGTTTTGAGTGCATATTTAAGTAAAGGAAGCTTTATTCTATGCAAACCGAACTATGTGGG
18426284 ATC
66 ATC
18426287 TCATCCCTCG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (69 bp):
AATCATGTTTTGAGTGCATATTTAAGTAAAGGAAGCTTTATTCTATGCAAACCGAACTATGTGGG
ATCA
Found at i:18426572 original size:29 final size:29
Alignment explanation
Indices: 18426540--18426598 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
18426530 TTCTATATTT
18426540 ACAAATTCTAAAATTATTAAAAATGAAGC
1 ACAAATTCTAAAATTATTAAAAATGAAGC
18426569 ACAAATTCTAAAATTATTAAAAATGAAGC
1 ACAAATTCTAAAATTATTAAAAATGAAGC
18426598 A
1 A
18426599 TTCATATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.27
Consensus pattern (29 bp):
ACAAATTCTAAAATTATTAAAAATGAAGC
Found at i:18429273 original size:24 final size:24
Alignment explanation
Indices: 18429236--18429298 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
18429226 TCATGTACAC
*
18429236 ATTATT-TATATTATTTTCA-TGATT
1 ATTATTGTAT-TTATTTTCACT-ACT
* *
18429260 ATTATTGTGTTTATTTTTACTACT
1 ATTATTGTATTTATTTTCACTACT
18429284 ATTATTGTATTTATT
1 ATTATTGTATTTATT
18429299 ATTAGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTATTGTATTTATTTTCACTACT
Found at i:18429313 original size:24 final size:24
Alignment explanation
Indices: 18429257--18429313 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
18429247 TATTTTCATG
* *
18429257 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
18429281 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
18429305 ATTAGTATT
1 ATTATTATT
18429314 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:18429542 original size:16 final size:16
Alignment explanation
Indices: 18429498--18429554 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
18429488 TTCTAATGTG
18429498 TATGTAT-TATATATAT
1 TATGTATATAT-TATAT
* *
18429514 T-TTTA-ATACTATAT
1 TATGTATATATTATAT
18429528 TATGTATATATTATAT
1 TATGTATATATTATAT
*
18429544 TATATATATAT
1 TATGTATATAT
18429555 AGTTATTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 6 0.18
15 8 0.24
16 19 0.58
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
TATGTATATATTATAT
Found at i:18429578 original size:14 final size:14
Alignment explanation
Indices: 18429527--18429584 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
18429517 TAATACTATA
18429527 TTATGTATATA-TT
1 TTATGTATATATTT
* *
18429540 ATAT-TATATATAT
1 TTATGTATATATTT
*
18429553 ATA-GTTATTATATTT
1 TTATG-TA-TATATTT
18429568 TTATGTATATATTT
1 TTATGTATATATTT
18429582 TTA
1 TTA
18429585 ATATCACATT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
12 6 0.17
13 7 0.19
14 12 0.33
15 10 0.28
16 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (14 bp):
TTATGTATATATTT
Found at i:18429791 original size:3 final size:3
Alignment explanation
Indices: 18429783--18429817 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
18429773 TTCTACGTTG
*
18429783 TAT TAT TAT TAAT TAT TAT TAT TAT TGT TAT TAT T
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT T
18429818 TTTTTTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:18441775 original size:44 final size:44
Alignment explanation
Indices: 18441626--18442282 Score: 925
Period size: 44 Copynumber: 15.2 Consensus size: 44
18441616 TCCTTGAAAC
* *
18441626 AGATAACAGATTTGGCGTCTCTATAGCGGCGGATAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18441670 AGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* **
18441710 AGAT----GATTTGGCATCTCTGTAGCGGTAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18441750 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
18441794 AGATAACAGATTTGGCATCTCTGTAGCGGTGGAGAGCAAATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
18441838 AGATAACAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAAC-AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18441883 AGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
18441923 AAATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18441967 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18442011 AGATAACAAAATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAAC-AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
18442056 AGAT----GATTTGGCATCTCTGTAGAGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
18442096 AAATAACAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
18442140 AGATAACAGATTTGGCGTCTCTGTGGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18442184 AGATAACAGATTTGGCGTCT-TCGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCT-GTAGCGGCGGAGAGCAGATCGA
* * **
18442228 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGTAGATAAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
18442272 AAATAACAGAT
1 AGATAACAGAT
18442283 CGGTGTTCCT
Statistics
Matches: 556, Mismatches: 41, Indels: 32
0.88 0.07 0.05
Matches are distributed among these distances:
40 149 0.27
43 1 0.00
44 328 0.59
45 78 0.14
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:18441916 original size:173 final size:172
Alignment explanation
Indices: 18441626--18442282 Score: 1018
Period size: 173 Copynumber: 3.8 Consensus size: 172
18441616 TCCTTGAAAC
* * * *
18441626 AGATAACAGATTTGGCGTCTCTATAGCGGCGGATAGCAGATCGAAGAT----GATTTGGCATCTC
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
* *
18441687 TGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGTAGAGAGCAGATCGAAG
66 TGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAA
18441752 ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
131 ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
* *
18441794 AGATAACAGATTTGGCATCTCTGTAGCGGTGGAGAGCAAATCGAAGATAACAAGATTTGGCGTCT
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC-AGATTTGGCGTCT
*
18441859 CTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAA
65 CTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAA
18441924 AATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
130 AATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
*
18441967 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAAATTTGGCGTCT
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC-AGATTTGGCGTCT
* *
18442032 CTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGAGGCGGAGAGCAGATCGAA
65 CTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAA
* *
18442097 AATAACAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGA
130 AATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
* * *
18442140 AGATAACAGATTTGGCGTCTCTGTGGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCT-
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
* * *
18442204 TCGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGTAGAT
66 T-GTAGCGGCGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGCAGAGAGCAGAT
**
18442269 AAAAAATAACAGAT
126 CGAAAATAACAGAT
18442283 CGGTGTTCCT
Statistics
Matches: 453, Mismatches: 26, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
168 43 0.09
171 1 0.00
172 37 0.08
173 331 0.73
176 41 0.09
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (172 bp):
AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
TGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAA
ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
Found at i:18442016 original size:217 final size:216
Alignment explanation
Indices: 18441626--18442263 Score: 961
Period size: 217 Copynumber: 3.0 Consensus size: 216
18441616 TCCTTGAAAC
* *
18441626 AGATAACAGATTTGGCGTCTCTATAGCGGCGGATAGCAGATCGAAGATGATTTGGCATCTCTGTA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTA
* *
18441691 GCGGCGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGTAGAGAGCAGATCGAAG
66 GCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAG
* *
18441752 ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGAAGATAACAGATTTGGCATCTCTG
131 ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
*
18441817 TAGCGGTGGAGAGCAAATCGA
196 TAGCGGCGGAGAGCAAATCGA
18441838 AGATAACAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGT
1 AGATAAC-AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGT
* * *
18441903 AGCGGCGGAGAGCAGATCGAAAATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGAA
65 AGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAA
* *
18441968 GATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAAATTTGGCGTCTC
130 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC-AGATTTGGCGTCTC
*
18442033 TGTAGCGGCGGAGAGCAGATCGA
194 TGTAGCGGCGGAGAGCAAATCGA
* * * *
18442056 AGAT----GATTTGGCATCTCTGTAGAGGCGGAGAGCAGATCGAAAATAACAGATTTGGCGTCTC
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----GATTTGGCATCTC
* *
18442117 TGTAGCGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTGGCGGCAGAGAGCAGATC
62 TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATC
*
18442182 GAAGATAACAGATTTGGCGTCT-TCGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGT
127 GAAGATAACAGATTTGGCGTCTCT-GTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGT
*
18442246 CTCTGTAGCGGCAGAGAG
191 CTCTGTAGCGGCGGAGAG
18442264 TAGATAAAAA
Statistics
Matches: 389, Mismatches: 26, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
212 7 0.02
213 115 0.30
216 28 0.07
217 202 0.52
218 37 0.10
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.21
Consensus pattern (216 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTA
GCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAG
ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
TAGCGGCGGAGAGCAAATCGA
Found at i:18443100 original size:13 final size:13
Alignment explanation
Indices: 18443082--18443123 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
18443072 GAAATTTTCA
18443082 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
18443095 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
**
18443108 CGGTGGATGGCGG
1 CGGTGGCCGGCGG
18443121 CGG
1 CGG
18443124 ACGGAGCCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.02, C:0.26, G:0.62, T:0.10
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:18443889 original size:24 final size:24
Alignment explanation
Indices: 18443833--18443889 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
18443823 TATTTTCATG
* * *
18443833 ATTATTATTGTGTTTATTTTTACT
1 ATTACTATTGTATTTATTATTACT
* *
18443857 ACTACTATTGTATTTATTATTAGT
1 ATTACTATTGTATTTATTATTACT
*
18443881 ATTAGTATT
1 ATTACTATT
18443890 ATAATTACTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (24 bp):
ATTACTATTGTATTTATTATTACT
Found at i:18444017 original size:14 final size:14
Alignment explanation
Indices: 18443998--18444033 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
18443988 TATTTTTAAC
18443998 ATATATATGTATAT
1 ATATATATGTATAT
*
18444012 ATATATATGTATGT
1 ATATATATGTATAT
18444026 ATATATAT
1 ATATATAT
18444034 ATTTATGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (14 bp):
ATATATATGTATAT
Found at i:18444119 original size:23 final size:21
Alignment explanation
Indices: 18444093--18444168 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
18444083 AATGTGTATG
*
18444093 TATTATATATATTTTTAATACTA
1 TATTATATATATTATT-ATA-TA
*
18444116 TATTATGTATA-TATTATAT-
1 TATTATATATATTATTATATA
18444135 TATATATATATAGTTATTATAT-
1 TAT-TATATATA-TTATTATATA
*
18444157 TTTTATATATAT
1 TATTATATATAT
18444169 ATTTTTAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
19 3 0.07
20 9 0.20
21 11 0.24
22 13 0.28
23 10 0.22
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (21 bp):
TATTATATATATTATTATATA
Found at i:18444133 original size:16 final size:16
Alignment explanation
Indices: 18444089--18444145 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
18444079 TTCTAATGTG
18444089 TATGTAT-TATATATAT
1 TATGTATATAT-TATAT
* *
18444105 T-TTTA-ATACTATAT
1 TATGTATATATTATAT
18444119 TATGTATATATTATAT
1 TATGTATATATTATAT
*
18444135 TATATATATAT
1 TATGTATATAT
18444146 AGTTATTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 6 0.18
15 8 0.24
16 19 0.58
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
TATGTATATATTATAT
Found at i:18444144 original size:27 final size:25
Alignment explanation
Indices: 18444098--18444171 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 25
18444088 GTATGTATTA
18444098 TATATATTTTTA-ATACTATATTA-T
1 TATATATTTTTATATA-TATATTAGT
18444122 GTATATATTATATTATATATATA-TAGT
1 -TATATATT-T-TTATATATATATTAGT
18444149 TATTATATTTTTATATATATATT
1 TA-TATATTTTTATATATATATT
18444172 TTTAATATCA
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
25 19 0.44
26 7 0.16
27 14 0.33
28 3 0.07
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (25 bp):
TATATATTTTTATATATATATTAGT
Done.