Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 84 of 125
Found at i:16752197 original size:10 final size:10
Alignment explanation
Indices: 16752182--16752221 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
16752172 TTAACCAAAT
16752182 TAACTAACTA
1 TAACTAACTA
*
16752192 TAACTAACCA
1 TAACTAACTA
*
16752202 TACCTAACTA
1 TAACTAACTA
*
16752212 CAACTAACTA
1 TAACTAACTA
16752222 AAATAACAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (10 bp):
TAACTAACTA
Found at i:16757273 original size:21 final size:21
Alignment explanation
Indices: 16757210--16757282 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
16757200 AAACAAAACC
* *
16757210 TGATCAATCCCTTTATATAAGG
1 TGATCAAT-CCTTTACATAGGG
* *
16757232 -GATCAATCCTAT-CAAAGGGG
1 TGATCAATCCTTTACATA-GGG
16757252 TGATCAATCCTTTACATAGGG
1 TGATCAATCCTTTACATAGGG
* *
16757273 TAATCGATCC
1 TGATCAATCC
16757283 CATTTACAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
19 2 0.05
20 6 0.15
21 29 0.73
22 3 0.08
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (21 bp):
TGATCAATCCTTTACATAGGG
Found at i:16759232 original size:20 final size:20
Alignment explanation
Indices: 16759183--16759270 Score: 85
Period size: 19 Copynumber: 4.5 Consensus size: 20
16759173 GAGTTTTACT
* *
16759183 TAGGA-TTTAGGATTTCACA
1 TAGGATTTTAGGGTTTCACC
*
16759202 TAGG-GTTTAGGGTTTCACC
1 TAGGATTTTAGGGTTTCACC
16759221 TAGGATTTTA-GGTTTCACC
1 TAGGATTTTAGGGTTTCACC
* *
16759240 TAAGGCTTTT-GAGTTTCACC
1 T-AGGATTTTAGGGTTTCACC
*
16759260 TAGGGTTTTAG
1 TAGGATTTTAG
16759271 TTTATGGCGT
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
19 37 0.64
20 21 0.36
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.40
Consensus pattern (20 bp):
TAGGATTTTAGGGTTTCACC
Found at i:16759754 original size:3 final size:3
Alignment explanation
Indices: 16759746--16759778 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
16759736 TATAATGGAA
*
16759746 ATG ATG ATG ATG ATG ATG AAG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
16759779 TAAAAGGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:16767017 original size:25 final size:26
Alignment explanation
Indices: 16766963--16767018 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
16766953 AAAGGCGAAA
* *
16766963 ATTTTTTTCTTTTTGTTTTTTTTAGC
1 ATTTTTTTCTCTTTGTTTTTGTTAGC
16766989 -TTTTTTCTCTCTTT-TTTTTGTTA-C
1 ATTTTTT-TCTCTTTGTTTTTGTTAGC
16767013 ATTTTT
1 ATTTTT
16767019 ATTATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 19 0.73
26 6 0.23
ACGTcount: A:0.07, C:0.11, G:0.05, T:0.77
Consensus pattern (26 bp):
ATTTTTTTCTCTTTGTTTTTGTTAGC
Found at i:16767035 original size:42 final size:43
Alignment explanation
Indices: 16766980--16767095 Score: 123
Period size: 42 Copynumber: 2.7 Consensus size: 43
16766970 TCTTTTTGTT
16766980 TTTTTTAGCTTTTTTCTCTCTTTTTTTTGTTACA-TT-TTTATTATA
1 TTTTTTA--TTTTTT-TCTCTTTTTTTT-TTACATTTCTTTATTATA
*
16767025 -TTTTTATTTTTTTCT-TCTTTTTTTTACATTTTCTTTATTATA
1 TTTTTTATTTTTTTCTCTTTTTTTTTTACA-TTTCTTTATTATA
**
16767067 TTTTTTATTATTTTTCTCTTGATTTTTTA
1 TTTTTTATT-TTTTTCTCTTTTTTTTTTA
16767096 TTTTTTGGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
39 5 0.08
40 7 0.11
41 5 0.08
42 15 0.25
43 8 0.13
44 13 0.21
45 8 0.13
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (43 bp):
TTTTTTATTTTTTTCTCTTTTTTTTTTACATTTCTTTATTATA
Found at i:16767074 original size:9 final size:10
Alignment explanation
Indices: 16767065--16767124 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
16767055 TTCTTTATTA
16767065 TATTTTTTAT
1 TATTTTTTAT
*
16767075 TATTTTTCTCT
1 TATTTTT-TAT
16767086 TGATTTTTTAT
1 T-ATTTTTTAT
**
16767097 T-TTTTGGAT
1 TATTTTTTAT
*
16767106 GATTTTATTAT
1 TATTTT-TTAT
16767117 TATTTTTT
1 TATTTTTT
16767125 TTCTTTTCTG
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
9 6 0.16
10 13 0.34
11 13 0.34
12 6 0.16
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.73
Consensus pattern (10 bp):
TATTTTTTAT
Found at i:16767075 original size:12 final size:11
Alignment explanation
Indices: 16767014--16767125 Score: 58
Period size: 11 Copynumber: 10.5 Consensus size: 11
16767004 TTTTGTTACA
*
16767014 TTTTTATTATA
1 TTTTTATTATT
16767025 TTTTTATT-TT
1 TTTTTATTATT
*
16767035 TTTCTT-CT-TT
1 TTT-TTATTATT
*
16767045 TTTTTA-CATT
1 TTTTTATTATT
16767055 TTCTTTATTATAT
1 TT-TTTATTAT-T
16767068 TTTTTATTATT
1 TTTTTATTATT
* *
16767079 TTTCTCTTGA-T
1 TTTTTATT-ATT
16767090 TTTTTA-T-TT
1 TTTTTATTATT
** *
16767099 TTTGGATGATT
1 TTTTTATTATT
*
16767110 TTATTATTATT
1 TTTTTATTATT
16767121 TTTTT
1 TTTTT
16767126 TCTTTTCTGC
Statistics
Matches: 75, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
9 7 0.09
10 15 0.20
11 39 0.52
12 11 0.15
13 3 0.04
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (11 bp):
TTTTTATTATT
Found at i:16767099 original size:43 final size:41
Alignment explanation
Indices: 16767016--16767100 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 41
16767006 TTGTTACATT
16767016 TTTATTATATTTTTATTTTTTTCTTCTTTTTTTTACATTTTC
1 TTTATTATATTTTTATTTTTTTCTTCTTTTTTTTA-ATTTTC
*
16767058 TTTATTATATTTTTTATTATTTTTC-TCTTGATTTTTTATTTTT
1 TTTATTATA-TTTTTATT-TTTTTCTTCTT--TTTTTTAATTTT
16767101 TGGATGATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
42 9 0.24
43 12 0.32
44 10 0.26
45 7 0.18
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.76
Consensus pattern (41 bp):
TTTATTATATTTTTATTTTTTTCTTCTTTTTTTTAATTTTC
Found at i:16767404 original size:33 final size:32
Alignment explanation
Indices: 16767335--16767463 Score: 98
Period size: 33 Copynumber: 3.9 Consensus size: 32
16767325 TAAATTGGGT
* * * *
16767335 TTAAATTTCTTTGGGTGCCAGCTAATCT-GAA
1 TTAAATTTCATTGGGTGCCAACTAAGCTAGGA
*
16767366 CTTAAATTTGCATTGGGTGTCAACTAAGCTAGGA
1 -TTAAATTT-CATTGGGTGCCAACTAAGCTAGGA
* * * * * *
16767400 TTAAATTCTAATTAGGTGCCAGCTAATCTTGGC
1 TTAAATT-TCATTGGGTGCCAACTAAGCTAGGA
* *
16767433 TTAAATTTTCATTGGGTGCCAGCTAAACTAG
1 TTAAA-TTTCATTGGGTGCCAACTAAGCTAG
16767464 CTTAAAACTT
Statistics
Matches: 77, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
32 8 0.10
33 64 0.83
34 5 0.06
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (32 bp):
TTAAATTTCATTGGGTGCCAACTAAGCTAGGA
Found at i:16767605 original size:32 final size:32
Alignment explanation
Indices: 16767563--16767635 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
16767553 ATAGATTGGA
* *
16767563 CTTAAGATTTTCATTG-GTGCTAGCTAAACTAAG
1 CTTAA-ATTTTCA-TGAGTGCGAACTAAACTAAG
*
16767596 CTTAAATTTTCATGAGTGCGAACTAAACTAGG
1 CTTAAATTTTCATGAGTGCGAACTAAACTAAG
*
16767628 CTTCAATT
1 CTTAAATT
16767636 CTAATTGGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 2 0.06
32 28 0.80
33 5 0.14
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (32 bp):
CTTAAATTTTCATGAGTGCGAACTAAACTAAG
Found at i:16767663 original size:33 final size:33
Alignment explanation
Indices: 16767626--16767699 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
16767616 AACTAAACTA
* **
16767626 GGCTTCAATTCTAATTGGGTGCCAACTAA-TATG
1 GGCTTAAATTCTAATTAAGTGCCAACTAAGTA-G
* *
16767659 GGCTTAAATTTTCATTAAGTGCCAACTAAGTAG
1 GGCTTAAATTCTAATTAAGTGCCAACTAAGTAG
16767692 GGCTTAAA
1 GGCTTAAA
16767700 CCTTCATTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 33 0.94
34 2 0.06
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (33 bp):
GGCTTAAATTCTAATTAAGTGCCAACTAAGTAG
Found at i:16767706 original size:33 final size:33
Alignment explanation
Indices: 16767644--16767708 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
16767634 TTCTAATTGG
**
16767644 GTGCCAACTAATATGGGCTTAAATTTTCATTAA
1 GTGCCAACTAATATGGGCTTAAACCTTCATTAA
16767677 GTGCCAACTAAGTA-GGGCTTAAACCTTCATTA
1 GTGCCAACTAA-TATGGGCTTAAACCTTCATTA
16767709 GGTGTCAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (33 bp):
GTGCCAACTAATATGGGCTTAAACCTTCATTAA
Found at i:16767940 original size:22 final size:22
Alignment explanation
Indices: 16767899--16767941 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16767889 ACATTTTCAA
*
16767899 CTAATCTGAGCTTATGTACCAG
1 CTAATCTGAGCTTATATACCAG
* *
16767921 CTAATCTTAGCTTGTATACCA
1 CTAATCTGAGCTTATATACCA
16767942 ATTAATGTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (22 bp):
CTAATCTGAGCTTATATACCAG
Found at i:16767981 original size:22 final size:22
Alignment explanation
Indices: 16767951--16767992 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16767941 AATTAATGTA
* *
16767951 CTAGTTAAACTGGGCTTATATG
1 CTAGCTAAACTAGGCTTATATG
16767973 CTAGCTAAACTAGGCTTATA
1 CTAGCTAAACTAGGCTTATA
16767993 ATCTTTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (22 bp):
CTAGCTAAACTAGGCTTATATG
Found at i:16769040 original size:12 final size:12
Alignment explanation
Indices: 16769019--16769069 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
16769009 TCCTTCCTTC
*
16769019 CTTTTTTTCTTT
1 CTTTTCTTCTTT
16769031 CTTTTCTTCTTT
1 CTTTTCTTCTTT
* *
16769043 CTTTTGGTTTTTT
1 CTTTT-CTTCTTT
16769056 CTTTTCTT-TTT
1 CTTTTCTTCTTT
16769067 CTT
1 CTT
16769070 CACTTTTCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
11 6 0.18
12 18 0.53
13 10 0.29
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (12 bp):
CTTTTCTTCTTT
Found at i:16769075 original size:29 final size:28
Alignment explanation
Indices: 16769021--16769076 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
16769011 CTTCCTTCCT
*
16769021 TTTTTTCTTTCTTTTCTTCTTTCTTTTGG
1 TTTTTTCTTTCTTTTCTTC-TACTTTTGG
16769050 TTTTTTCTTTTCTTTTTCTTC-ACTTTT
1 TTTTTTC-TTTC-TTTTCTTCTACTTTT
16769077 CTATTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 12 0.50
30 4 0.17
31 8 0.33
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (28 bp):
TTTTTTCTTTCTTTTCTTCTACTTTTGG
Found at i:16769091 original size:16 final size:14
Alignment explanation
Indices: 16769022--16769114 Score: 52
Period size: 13 Copynumber: 6.6 Consensus size: 14
16769012 TTCCTTCCTT
16769022 TTTTTCTTTCTTTTC
1 TTTTTC-TTCTTTTC
* *
16769037 -TTCT-TTCTTTTG
1 TTTTTCTTCTTTTC
*
16769049 GTTTT-TTCTTTTC
1 TTTTTCTTCTTTTC
16769062 TTTTTCTTCACTTTTC
1 TTTTTCTT--CTTTTC
16769078 TATTTTCATTC-TTTC
1 T-TTTTC-TTCTTTTC
**
16769093 -ACTTCTTCTTTTCC
1 TTTTTCTTCTTTT-C
16769107 TTTTTCTT
1 TTTTTCTT
16769115 TGAGTGGATC
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
12 10 0.17
13 20 0.33
14 6 0.10
15 9 0.15
16 8 0.13
17 5 0.08
18 2 0.03
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTTTCTTCTTTTC
Found at i:16770851 original size:24 final size:25
Alignment explanation
Indices: 16770824--16770881 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
16770814 TAAAATTCTC
*
16770824 AAAAATGAAAAAAAATAAT-AG-TAA
1 AAAAATCAAAAAAAA-AATAAGCTAA
*
16770848 AAAAATCAAAAATAAAATAAGCT-A
1 AAAAATCAAAAAAAAAATAAGCTAA
16770872 AAAAATCAAA
1 AAAAATCAAA
16770882 TCAAATCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 3 0.10
24 26 0.87
25 1 0.03
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (25 bp):
AAAAATCAAAAAAAAAATAAGCTAA
Found at i:16770858 original size:23 final size:24
Alignment explanation
Indices: 16770847--16770913 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
16770837 AATAATAGTA
16770847 AAAAAATCAAAAATAAAATAAGCT
1 AAAAAATCAAAAATAAAATAAGCT
* *
16770871 AAAAAATC--AAATCAAATCAA-AT
1 AAAAAATCAAAAATAAAAT-AAGCT
16770893 CAAAAAAT-AAAAATAAAATAA
1 -AAAAAATCAAAAATAAAATAA
16770914 AAAAGGAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
22 9 0.25
23 11 0.31
24 16 0.44
ACGTcount: A:0.73, C:0.09, G:0.01, T:0.16
Consensus pattern (24 bp):
AAAAAATCAAAAATAAAATAAGCT
Found at i:16771784 original size:20 final size:20
Alignment explanation
Indices: 16771755--16771799 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
16771745 GGTGTAAAAG
*
16771755 AAAA-AAAAATGAAAACATA
1 AAAATAAAAATAAAAACATA
*
16771774 AAAATAAAAATAAAAATATA
1 AAAATAAAAATAAAAACATA
*
16771794 ATAATA
1 AAAATA
16771800 GTAACAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAATAAAAATAAAAACATA
Found at i:16771799 original size:3 final size:3
Alignment explanation
Indices: 16771771--16771920 Score: 77
Period size: 3 Copynumber: 52.0 Consensus size: 3
16771761 AAATGAAAAC
* * * * *
16771771 ATA AAA ATA AAA ATA AAA AT- ATA ATA ATA GTA ACA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
16771817 AT- ATA ATA A-A AGTA ATA AT- ATA GTA ATA AGA ATA GTA ACA GTA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
16771860 ATA ATA AT- AGA ATA AT- ATA ATA A-A AGTA ATA AT- ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
*
16771902 AGA AT- ATA GATA CATA ATA
1 ATA ATA ATA -ATA -ATA ATA
16771921 TGATATACTA
Statistics
Matches: 107, Mismatches: 27, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
2 19 0.18
3 78 0.73
4 10 0.09
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:16771814 original size:28 final size:28
Alignment explanation
Indices: 16771776--16771893 Score: 118
Period size: 28 Copynumber: 4.2 Consensus size: 28
16771766 AAAACATAAA
*
16771776 AATAA-AA-ATAAAAATATAATAATAGT
1 AATAATAATATAAAAATATAATAAAAGT
* *
16771802 AACAATAATATAATAATATAATAAAAGT
1 AATAATAATATAAAAATATAATAAAAGT
* *
16771830 AATAAT-ATAGTAATAAGA-ATAGTAACAGT
1 AATAATAATA-TAA-AA-ATATAATAAAAGT
* *
16771859 AATAATAATAGAATAATATAATAAAAGT
1 AATAATAATATAAAAATATAATAAAAGT
16771887 AATAATA
1 AATAATA
16771894 TAGTAATAAG
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
26 4 0.05
27 6 0.08
28 42 0.57
29 18 0.24
30 4 0.05
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.28
Consensus pattern (28 bp):
AATAATAATATAAAAATATAATAAAAGT
Found at i:16771823 original size:8 final size:8
Alignment explanation
Indices: 16771805--16771901 Score: 72
Period size: 8 Copynumber: 11.9 Consensus size: 8
16771795 TAATAGTAAC
16771805 AATAATAT
1 AATAATAT
16771813 AATAATAT
1 AATAATAT
*
16771821 AATAAAAGT
1 AATAATA-T
16771830 AATAATAT
1 AATAATAT
*
16771838 AGT-A-AT
1 AATAATAT
*
16771844 AAGAATAGT
1 AATAATA-T
* *
16771853 AACAGTAAT
1 AATAAT-AT
*
16771862 AATAATAG
1 AATAATAT
16771870 AATAATAT
1 AATAATAT
*
16771878 AATAAAAGT
1 AATAATA-T
16771887 AATAATAT
1 AATAATAT
*
16771895 AGTAATA
1 AATAATA
16771902 AGAATATAGA
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
6 3 0.04
7 2 0.03
8 39 0.57
9 24 0.35
10 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (8 bp):
AATAATAT
Found at i:16771868 original size:57 final size:57
Alignment explanation
Indices: 16771799--16771907 Score: 200
Period size: 57 Copynumber: 1.9 Consensus size: 57
16771789 ATATAATAAT
*
16771799 AGTAACAATAATATAATAATATAATAAAAGTAATAATATAGTAATAAGAATAGTAAC
1 AGTAACAATAATAGAATAATATAATAAAAGTAATAATATAGTAATAAGAATAGTAAC
*
16771856 AGTAATAATAATAGAATAATATAATAAAAGTAATAATATAGTAATAAGAATA
1 AGTAACAATAATAGAATAATATAATAAAAGTAATAATATAGTAATAAGAATA
16771908 TAGATACATA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (57 bp):
AGTAACAATAATAGAATAATATAATAAAAGTAATAATATAGTAATAAGAATAGTAAC
Found at i:16771901 original size:28 final size:29
Alignment explanation
Indices: 16771788--16771902 Score: 148
Period size: 28 Copynumber: 4.1 Consensus size: 29
16771778 TAAAAATAAA
* *
16771788 AATATAATAATAGTAACAATAATA-TAAT
1 AATATAATAAAAGTAATAATAATAGTAAT
16771816 AATATAATAAAAGTAATAAT-ATAGTAAT
1 AATATAATAAAAGTAATAATAATAGTAAT
* * *
16771844 AAGAATAGTAACAGTAATAATAATAG-AAT
1 AA-TATAATAAAAGTAATAATAATAGTAAT
16771873 AATATAATAAAAGTAATAAT-ATAGTAAT
1 AATATAATAAAAGTAATAATAATAGTAAT
16771901 AA
1 AA
16771903 GAATATAGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.09
28 44 0.59
29 20 0.27
30 4 0.05
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (29 bp):
AATATAATAAAAGTAATAATAATAGTAAT
Found at i:16771907 original size:17 final size:17
Alignment explanation
Indices: 16771813--16771907 Score: 68
Period size: 17 Copynumber: 5.2 Consensus size: 17
16771803 ACAATAATAT
*
16771813 AATAATATAATAA-AAG
1 AATAATATAGTAATAAG
16771829 TAATAATATAGTAATAAG
1 -AATAATATAGTAATAAG
* * *
16771847 AATAGTAACAGTAATAAT
1 AATAAT-ATAGTAATAAG
16771865 AATAGAATAATA-TAATAAAAG
1 AAT--AAT-ATAGTAAT--AAG
16771886 TAATAATATAGTAATAAG
1 -AATAATATAGTAATAAG
16771904 AATA
1 AATA
16771908 TAGATACATA
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
17 21 0.33
18 18 0.29
19 7 0.11
20 12 0.19
21 2 0.03
22 3 0.05
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.28
Consensus pattern (17 bp):
AATAATATAGTAATAAG
Found at i:16772322 original size:121 final size:121
Alignment explanation
Indices: 16772170--16772735 Score: 601
Period size: 121 Copynumber: 4.7 Consensus size: 121
16772160 ACGAAATCAC
* * * * * *
16772170 GAGTC-AAAAATGAAGTGATCAGGACCAAGTCGAGGTAAAAAACAAATTATC-AGGATGAAACCA
1 GAGTCAAAAAATGAAGTGACCAGGATCGAGTCGAGGTCAAAAATAAATGATCGA-GATGAAACCA
** * * * * **
16772233 TGAGTCATAAGAAATGATCTGGATTGAGCCAAGATTAAGTGA-CTGGGATGAAACCAT
65 CAAGTCATAAGAAATGATCTGAACTGAGCCAAGATCAGGTGATC-GGGACAAAACCAT
* * *
16772290 GAGTCAAAAAATGGAGTGACCAAGATCGAGTCGAGGTCGAAAATAAATGATCGAGATGAAACCAC
1 GAGTCAAAAAATGAAGTGACCAGGATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCAC
* *
16772355 AAGTCATAAGAAATGATCT-AATTGAGCCAAGATCGGGTGA-CTGGGACAAAACCAT
66 AAGTCATAAGAAATGATCTGAACTGAGCCAAGATCAGGTGATC-GGGACAAAACCAT
* * * * *
16772410 GAGTCAAAAAA-GAAGCGGCCAGGATCGAGTCAAGGTCGAAAATAAATGATCGAGATGAAACTAC
1 GAGTCAAAAAATGAAGTGACCAGGATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCAC
* * * * *
16772474 AAGTCATAAGAAATAATCTGAACT-AGATCGAGATTAGGTGATCGGGACAAAACCAC
66 AAGTCATAAGAAATGATCTGAACTGAG-CCAAGATCAGGTGATCGGGACAAAACCAT
* * * *
16772530 GAGTCAAAAAATGGAGCGACCAGGATCGAGTTGAGGTCAAAAATAAATGATCGGGATGAAACCAC
1 GAGTCAAAAAATGAAGTGACCAGGATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCAC
* * * * * **
16772595 AAGTCATAAAAAATTATTTGAACTGAGCCAAGATCGGGTGATCGAGATGAAACCAT
66 AAGTCATAAGAAATGATCTGAACTGAGCCAAGATCAGGTGATCGGGACAAAACCAT
* * * *
16772651 GAGTCAAAAAATGAAGTGACCTA-GA-CTGAGTCAAGGTCGAAAATAAATGACCGAGATGAAATC
1 GAGTCAAAAAATGAAGTGACC-AGGATC-GAGTCGAGGTCAAAAATAAATGATCGAGATGAAACC
* *
16772714 ACAAATCATAAGAAATTATCTG
64 ACAAGTCATAAGAAATGATCTG
16772736 GACTAAGCAA
Statistics
Matches: 378, Mismatches: 59, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
119 67 0.18
120 83 0.22
121 224 0.59
122 4 0.01
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.19
Consensus pattern (121 bp):
GAGTCAAAAAATGAAGTGACCAGGATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCAC
AAGTCATAAGAAATGATCTGAACTGAGCCAAGATCAGGTGATCGGGACAAAACCAT
Found at i:16772575 original size:240 final size:242
Alignment explanation
Indices: 16772283--16772740 Score: 667
Period size: 240 Copynumber: 1.9 Consensus size: 242
16772273 GACTGGGATG
* * *
16772283 AAACCATGAGTCAAAAAATGGAGTGACCAAGATCGAGTCGAGGTCGAAAATAAATGATCGAGATG
1 AAACCACGAGTCAAAAAATGGAGCGACCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGATG
* * *
16772348 AAACCACAAGTCATAAGAAATGATCT-AATTGAGCCAAGATCGGGTGA-CTGGGACAAAACCATG
66 AAACCACAAGTCATAAAAAATGATCTGAACTGAGCCAAGATCGGGTGATC-GAGACAAAACCATG
* *
16772411 AGTCAAAAAA-GAAGCGGCC-AGGA-TCGAGTCAAGGTCGAAAATAAATGATCGAGATGAAA-CT
130 AGTCAAAAAATGAAGCGACCTA-GACT-GAGTCAAGGTCGAAAATAAATGACCGAGATGAAATC-
*
16772472 ACAAGTCATAAGAAATAATCTGAACTAGATCGAGATTAGGTGATCGGGACA
192 ACAAATCATAAGAAATAATCTGAACTAGATCGAGATTAGGTGATCGGGACA
* * *
16772523 AAACCACGAGTCAAAAAATGGAGCGACCAGGATCGAGTTGAGGTCAAAAATAAATGATCGGGATG
1 AAACCACGAGTCAAAAAATGGAGCGACCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGATG
* * **
16772588 AAACCACAAGTCATAAAAAATTATTTGAACTGAGCCAAGATCGGGTGATCGAGATGAAACCATGA
66 AAACCACAAGTCATAAAAAATGATCTGAACTGAGCCAAGATCGGGTGATCGAGACAAAACCATGA
*
16772653 GTCAAAAAATGAAGTGACCTAGACTGAGTCAAGGTCGAAAATAAATGACCGAGATGAAATCACAA
131 GTCAAAAAATGAAGCGACCTAGACTGAGTCAAGGTCGAAAATAAATGACCGAGATGAAATCACAA
* *
16772718 ATCATAAGAAATTATCTGGACTA
196 ATCATAAGAAATAATCTGAACTA
16772741 AGCAAAAATC
Statistics
Matches: 193, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
240 82 0.42
241 41 0.21
242 67 0.35
243 3 0.02
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (242 bp):
AAACCACGAGTCAAAAAATGGAGCGACCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGATG
AAACCACAAGTCATAAAAAATGATCTGAACTGAGCCAAGATCGGGTGATCGAGACAAAACCATGA
GTCAAAAAATGAAGCGACCTAGACTGAGTCAAGGTCGAAAATAAATGACCGAGATGAAATCACAA
ATCATAAGAAATAATCTGAACTAGATCGAGATTAGGTGATCGGGACA
Found at i:16773481 original size:19 final size:19
Alignment explanation
Indices: 16773459--16773495 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16773449 AGTTATTAGT
* *
16773459 AATTTATTACTATATTATC
1 AATTTACTACTAAATTATC
16773478 AATTTACTACTAAATTAT
1 AATTTACTACTAAATTAT
16773496 TAATGATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTTACTACTAAATTATC
Found at i:16773505 original size:41 final size:42
Alignment explanation
Indices: 16773409--16773514 Score: 108
Period size: 41 Copynumber: 2.5 Consensus size: 42
16773399 GTTATCAATG
* * *
16773409 ATTAACTAA-TTATTACTAAATTATCATTGATTTGCAACTAAGTT
1 ATTAA-TAATTTATTACTATATTATCA-T-ATTTACAACTAAATT
* *
16773453 ATTAGTAATTTATTACTATATTATCA-ATTTACTACTAAATT
1 ATTAATAATTTATTACTATATTATCATATTTACAACTAAATT
* *
16773494 ATTAATGATTTATTATTATAT
1 ATTAATAATTTATTACTATAT
16773515 ATTTATATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 30 0.57
43 3 0.06
44 20 0.38
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (42 bp):
ATTAATAATTTATTACTATATTATCATATTTACAACTAAATT
Found at i:16773539 original size:19 final size:20
Alignment explanation
Indices: 16773460--16773539 Score: 63
Period size: 22 Copynumber: 3.9 Consensus size: 20
16773450 GTTATTAGTA
*
16773460 ATTTATTACTATATTATCA-
1 ATTTATTACTATATTATAAT
* *
16773479 ATTTACTACTAAATTATTAAT
1 ATTTATTACTATATTA-TAAT
* *
16773500 GATTTATTATTATATATTTATAT
1 -ATTTATTACTATAT-TATA-AT
*
16773523 ATTTATTATTATATTAT
1 ATTTATTACTATATTAT
16773540 CATTGATTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
19 14 0.29
20 2 0.04
21 2 0.04
22 27 0.56
23 3 0.06
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (20 bp):
ATTTATTACTATATTATAAT
Found at i:16773548 original size:22 final size:21
Alignment explanation
Indices: 16773460--16773554 Score: 61
Period size: 22 Copynumber: 4.5 Consensus size: 21
16773450 GTTATTAGTA
16773460 ATTTATTACTATATTATCA--
1 ATTTATTACTATATTATCATT
* * * *
16773479 ATTTACTACTAAATTATTAATG
1 ATTTATTACTATATTA-TCATT
* *
16773501 ATTTATTATTATA-TATTTATAT
1 ATTTATTACTATATTA-TCAT-T
*
16773523 ATTTATTATTATATTATCATT
1 ATTTATTACTATATTATCATT
*
16773544 GATTTACTACT
1 -ATTTATTACT
16773555 TAAATTTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
19 14 0.24
20 2 0.03
21 7 0.12
22 34 0.58
23 2 0.03
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTTATTACTATATTATCATT
Found at i:16773570 original size:22 final size:21
Alignment explanation
Indices: 16773479--16773570 Score: 60
Period size: 22 Copynumber: 4.2 Consensus size: 21
16773469 TATATTATCA
* *
16773479 ATTTACTACTAAATTATTAATG
1 ATTTACTATTAAATT-TTAATT
* *
16773501 ATTTATTATTATATATTT-ATAT
1 ATTTACTATTAAAT-TTTAAT-T
* * * *
16773523 ATTTATTATTATATTATCATT
1 ATTTACTATTAAATTTTAATT
16773544 GATTTACTACTTAAATTTTAATT
1 -ATTTACTA-TTAAATTTTAATT
16773567 ATTT
1 ATTT
16773571 GTCACAAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
21 5 0.09
22 40 0.71
23 11 0.20
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTACTATTAAATTTTAATT
Found at i:16773698 original size:22 final size:22
Alignment explanation
Indices: 16773663--16773714 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
16773653 GATTTGCCAT
**
16773663 TAAGTTATCAATGATTAACTAC
1 TAAGTTATTGATGATTAACTAC
* **
16773685 TATGTTATTGATGATTTTCTAC
1 TAAGTTATTGATGATTAACTAC
16773707 TAAGTTAT
1 TAAGTTAT
16773715 ATAGATTTAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.46
Consensus pattern (22 bp):
TAAGTTATTGATGATTAACTAC
Found at i:16783557 original size:24 final size:24
Alignment explanation
Indices: 16783529--16783575 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
16783519 CCTTGAGAAT
*
16783529 ATATACTGTTCTACAATCTCAATA
1 ATATACTATTCTACAATCTCAATA
* *
16783553 ATATACTATTGTACACTCTCAAT
1 ATATACTATTCTACAATCTCAAT
16783576 TAACGCTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.38
Consensus pattern (24 bp):
ATATACTATTCTACAATCTCAATA
Found at i:16783841 original size:2 final size:2
Alignment explanation
Indices: 16783834--16783862 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16783824 AAATATGAAG
16783834 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16783863 GGGTAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16785365 original size:38 final size:37
Alignment explanation
Indices: 16785322--16785396 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 37
16785312 TGTAGCGTTG
*
16785322 ACATTGAGAGTTTCAAAGAAAGAAAAAGGAACAAAAAT
1 ACATTGAGAGTTTCAAAAAAAGAAAAA-GAACAAAAAT
*
16785360 ACATTGTGAGTTTCAAAAAAAGAAAAAGAACAAAAAT
1 ACATTGAGAGTTTCAAAAAAAGAAAAAGAACAAAAAT
16785397 TGAGCTAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 10 0.29
38 25 0.71
ACGTcount: A:0.59, C:0.08, G:0.16, T:0.17
Consensus pattern (37 bp):
ACATTGAGAGTTTCAAAAAAAGAAAAAGAACAAAAAT
Found at i:16789005 original size:18 final size:18
Alignment explanation
Indices: 16788982--16789019 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
16788972 AATACAAATG
16788982 TTAAATTGTTGATTTGTC
1 TTAAATTGTTGATTTGTC
16789000 TTAAATTGTTGATTTGTC
1 TTAAATTGTTGATTTGTC
16789018 TT
1 TT
16789020 TTGTTTGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.16, T:0.58
Consensus pattern (18 bp):
TTAAATTGTTGATTTGTC
Found at i:16792387 original size:13 final size:13
Alignment explanation
Indices: 16792369--16792402 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
16792359 ATTTGTATTC
16792369 TAATTTTTTAGTT
1 TAATTTTTTAGTT
*
16792382 TAA-TTTTTGGTT
1 TAATTTTTTAGTT
16792394 TAATTTTTT
1 TAATTTTTT
16792403 TTTTAGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (13 bp):
TAATTTTTTAGTT
Found at i:16792407 original size:12 final size:12
Alignment explanation
Indices: 16792369--16792407 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16792359 ATTTGTATTC
16792369 TAATTTTTTAGTT
1 TAATTTTTT-GTT
*
16792382 TAATTTTTGGTT
1 TAATTTTTTGTT
*
16792394 TAATTTTTTTTT
1 TAATTTTTTGTT
16792406 TA
1 TA
16792408 GTTAACAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (12 bp):
TAATTTTTTGTT
Found at i:16793052 original size:20 final size:20
Alignment explanation
Indices: 16793029--16793180 Score: 95
Period size: 20 Copynumber: 8.2 Consensus size: 20
16793019 TTATTATTTT
16793029 CATGATTATATATTTAATTG
1 CATGATTATATATTTAATTG
16793049 CATG--T-T-TA--T--TTG
1 CATGATTATATATTTAATTG
*
16793061 CATGATTATATATTTAATTA
1 CATGATTATATATTTAATTG
16793081 CAT-A-T-T-TA---A-TTG
1 CATGATTATATATTTAATTG
* *
16793093 CATAGTTTATATATTATTATTTG
1 CAT-GATTATATA-T-TTAATTG
16793116 CATGATTATATATTTAATTG
1 CATGATTATATATTTAATTG
* *
16793136 CAT-ATTTTACATTGTTAATTG
1 CATGATTATATA-T-TTAATTG
16793157 CATGATTATATATTTAATTG
1 CATGATTATATATTTAATTG
16793177 CATG
1 CATG
16793181 TCTATTTACA
Statistics
Matches: 101, Mismatches: 9, Indels: 44
0.66 0.06 0.29
Matches are distributed among these distances:
12 12 0.12
13 1 0.01
14 2 0.02
15 2 0.02
16 7 0.07
17 4 0.04
18 3 0.03
19 7 0.07
20 30 0.30
21 12 0.12
22 15 0.15
23 6 0.06
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (20 bp):
CATGATTATATATTTAATTG
Found at i:16793065 original size:32 final size:32
Alignment explanation
Indices: 16793022--16793142 Score: 118
Period size: 32 Copynumber: 4.1 Consensus size: 32
16793012 TTATATATTA
* * *
16793022 TTATTTTCATGATTATATATTTAATTGCATGT
1 TTATTTGCATGATTATATATTTAATTACATAT
16793054 TTATTTGCATGATTATATATTTAATTACATAT
1 TTATTTGCATGATTATATATTTAATTACATAT
*
16793086 TTAATTGCAT-AGTT-TATA--T-A-T---TA-
1 TTATTTGCATGA-TTATATATTTAATTACATAT
*
16793109 TTATTTGCATGATTATATATTTAATTGCATAT
1 TTATTTGCATGATTATATATTTAATTACATAT
16793141 TT
1 TT
16793143 TACATTGTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
23 11 0.15
24 7 0.10
26 1 0.01
27 2 0.03
28 2 0.03
29 1 0.01
31 7 0.10
32 42 0.58
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (32 bp):
TTATTTGCATGATTATATATTTAATTACATAT
Found at i:16793122 original size:87 final size:84
Alignment explanation
Indices: 16792951--16793143 Score: 243
Period size: 87 Copynumber: 2.3 Consensus size: 84
16792941 TGCATAACTT
* *
16792951 TTATATATTTAATTGCA-TTTTTTGCATGGTTTATATATTATTATTTACATGATTGAATGATTTA
1 TTATATATTTAATTGCATTTTTTTGCATGGATTATATATTATTAATTACATGATTGAATGATTTA
*
16793015 TATATTATTATTTTCATGA
66 TATATTATTATTTGCATGA
*
16793034 TTATATATTTAATTGCATGTTTATTTGCAT-GATTATATA-T-TTAATTACAT-ATTTAATTGCA
1 TTATATATTTAATTGCAT-TTT-TTTGCATGGATTATATATTATTAATTACATGATTGAA-TG--
16793095 TAGTTTATATATTATTATTTGCATGA
61 -A-TTTATATATTATTATTTGCATGA
*
16793121 TTATATATTTAATTGCATATTTT
1 TTATATATTTAATTGCATTTTTT
16793144 ACATTGTTAA
Statistics
Matches: 97, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
82 5 0.05
83 28 0.29
84 1 0.01
85 13 0.13
86 10 0.10
87 40 0.41
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (84 bp):
TTATATATTTAATTGCATTTTTTTGCATGGATTATATATTATTAATTACATGATTGAATGATTTA
TATATTATTATTTGCATGA
Found at i:16793285 original size:19 final size:19
Alignment explanation
Indices: 16793263--16793322 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
16793253 TTTATTATTA
16793263 TTATTGCATGATTTTATAT
1 TTATTGCATGATTTTATAT
16793282 TTATTGCATGA---TATAT
1 TTATTGCATGATTTTATAT
* *
16793298 GTTATTGCTTGTTTTTATAT
1 -TTATTGCATGATTTTATAT
16793318 TTATT
1 TTATT
16793323 ATGGGCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 5 0.14
17 9 0.26
19 16 0.46
20 5 0.14
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (19 bp):
TTATTGCATGATTTTATAT
Found at i:16793296 original size:16 final size:16
Alignment explanation
Indices: 16793228--16793305 Score: 56
Period size: 16 Copynumber: 4.8 Consensus size: 16
16793218 ATGATTATTA
16793228 ATATATTTATTTGCATG
1 ATATATTTA-TTGCATG
* * *
16793245 GT-TATTTATT-TATT
1 ATATATTTATTGCATG
16793259 AT-TA-TTATTGCATG
1 ATATATTTATTGCATG
16793273 ATTTTATATTTATTGCATG
1 A---TATATTTATTGCATG
16793292 ATATATGTTATTGC
1 ATATAT-TTATTGC
16793306 TTGTTTTTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
13 5 0.10
14 8 0.17
15 2 0.04
16 11 0.23
17 9 0.19
18 2 0.04
19 11 0.23
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (16 bp):
ATATATTTATTGCATG
Found at i:16804273 original size:51 final size:50
Alignment explanation
Indices: 16804197--16804294 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 50
16804187 CATTCATTAT
* *
16804197 TTGGATATTTTATTGCCCTTTCAATTATTAATTAATCATTGTCCTTTTTCC
1 TTGGATATTTTATTACCCATTCAATTATTAATTAATCATTGT-CTTTTTCC
* * *
16804248 TTGGATATTTTGA-TACCCATTCAATTATTGATTGATTATTGTCTTTT
1 TTGGATATTTT-ATTACCCATTCAATTATTAATTAATCATTGTCTTTT
16804295 GTTTACCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 5 0.12
51 35 0.85
52 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.53
Consensus pattern (50 bp):
TTGGATATTTTATTACCCATTCAATTATTAATTAATCATTGTCTTTTTCC
Found at i:16805303 original size:43 final size:44
Alignment explanation
Indices: 16805202--16805470 Score: 323
Period size: 44 Copynumber: 6.2 Consensus size: 44
16805192 GAATGATCTT
* * *
16805202 ATTTTGTTTTTCAAAATGTTTCAAAGCCTCAATTATGGGGGAGC
1 ATTTTATTTTTCAAAAAGTTTCAAAGCCTCAGTTATGGGGGAGC
16805246 ATTTTATTTTTCAAAAAGTTTCAAAGCCTCAGTTAT-GGGGAGC
1 ATTTTATTTTTCAAAAAGTTTCAAAGCCTCAGTTATGGGGGAGC
* * * * * *
16805289 ATTTTATTTCTC-AAAAGTTCCAAAGCCTTAGTTGTTGGGAAGC
1 ATTTTATTTTTCAAAAAGTTTCAAAGCCTCAGTTATGGGGGAGC
* * * * *
16805332 ATTTTA-TTTTCTAAAAGTTCCAAAACTTTAGTTATAGGGGGAGC
1 ATTTTATTTTTCAAAAAGTTTCAAAGCCTCAGTTAT-GGGGGAGC
* *
16805376 ATTTTATTTTTC--AAAGTTTCAAAGCCTCAGTTGTGAGGGAGC
1 ATTTTATTTTTCAAAAAGTTTCAAAGCCTCAGTTATGGGGGAGC
* * *
16805418 ATTTTATTTTCCAAAAAGTTTCAAAGCCTTAATTATGGGGGAGC
1 ATTTTATTTTTCAAAAAGTTTCAAAGCCTCAGTTATGGGGGAGC
16805462 ATTTTATTT
1 ATTTTATTT
16805471 AAAAAAAAAA
Statistics
Matches: 194, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
42 42 0.22
43 67 0.35
44 80 0.41
45 5 0.03
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (44 bp):
ATTTTATTTTTCAAAAAGTTTCAAAGCCTCAGTTATGGGGGAGC
Found at i:16805392 original size:86 final size:86
Alignment explanation
Indices: 16805202--16805470 Score: 346
Period size: 86 Copynumber: 3.1 Consensus size: 86
16805192 GAATGATCTT
* * * *
16805202 ATTTTGTTTTTCAAAATGTTTCAAAGCCTCAATTATGGGGGAGCATTTTATTTTTCAAAAAGTTT
1 ATTTTATTTTTCAAAA-GTTTCAAAGCCTCAGTTGTTGGGGAGCATTTTA-TTTTCAAAAAGTTT
*
16805267 CAAAGCCTCAGTTAT-GGGGAGC
64 CAAAGCCTTAGTTATGGGGGAGC
* * * * * *
16805289 ATTTTATTTCTCAAAAGTTCCAAAGCCTTAGTTGTTGGGAAGCATTTTATTTTCTAAAAGTTCCA
1 ATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTTGGGGAGCATTTTATTTTCAAAAAGTTTCA
* *
16805354 AAACTTTAGTTATAGGGGGAGC
66 AAGCCTTAGTTAT-GGGGGAGC
16805376 ATTTTATTTTTC-AAAGTTTCAAAGCCTCAGTTG-TGAGGGAGCATTTTATTTTCCAAAAAGTTT
1 ATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTTG-GGGAGCATTTTATTTT-CAAAAAGTTT
*
16805439 CAAAGCCTTAATTATGGGGGAGC
64 CAAAGCCTTAGTTATGGGGGAGC
16805462 ATTTTATTT
1 ATTTTATTT
16805471 AAAAAAAAAA
Statistics
Matches: 156, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
85 26 0.17
86 78 0.50
87 52 0.33
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (86 bp):
ATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTTGGGGAGCATTTTATTTTCAAAAAGTTTCA
AAGCCTTAGTTATGGGGGAGC
Found at i:16805478 original size:44 final size:43
Alignment explanation
Indices: 16805213--16805470 Score: 272
Period size: 43 Copynumber: 6.0 Consensus size: 43
16805203 TTTTGTTTTT
* * *
16805213 CAAAATGTTTCAAAGCCTCAATTATGGGGGAGCATTTTATTTTT
1 CAAAAAGTTTCAAAGCCTCAGTTATGGGGGAGCATTTTA-TTTC
16805257 CAAAAAGTTTCAAAGCCTCAGTTAT-GGGGAGCATTTTATTTC
1 CAAAAAGTTTCAAAGCCTCAGTTATGGGGGAGCATTTTATTTC
* * * * * *
16805299 TC-AAAAGTTCCAAAGCCTTAGTTGTTGGGAAGCATTTTATTTT
1 -CAAAAAGTTTCAAAGCCTCAGTTATGGGGGAGCATTTTATTTC
* * * * * *
16805342 CTAAAAGTTCCAAAACTTTAGTTATAGGGGGAGCATTTTATTTTT
1 CAAAAAGTTTCAAAGCCTCAGTTAT-GGGGGAGCATTTTA-TTTC
* *
16805387 C--AAAGTTTCAAAGCCTCAGTTGTGAGGGAGCATTTTATTTTC
1 CAAAAAGTTTCAAAGCCTCAGTTATGGGGGAGCATTTTA-TTTC
* *
16805429 CAAAAAGTTTCAAAGCCTTAATTATGGGGGAGCATTTTATTT
1 CAAAAAGTTTCAAAGCCTCAGTTATGGGGGAGCATTTTATTT
16805471 AAAAAAAAAA
Statistics
Matches: 183, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
42 42 0.23
43 69 0.38
44 67 0.37
45 5 0.03
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (43 bp):
CAAAAAGTTTCAAAGCCTCAGTTATGGGGGAGCATTTTATTTC
Found at i:16805738 original size:6 final size:6
Alignment explanation
Indices: 16805727--16805794 Score: 73
Period size: 6 Copynumber: 11.0 Consensus size: 6
16805717 TTTTAATCTG
* * * *
16805727 ATTTTA ATTTTA ATTTTG CTTTTA ATTTCA ATTTTA ATTTTTA ATTTTTG
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA A-TTTTA A-TTTTA
*
16805777 TTTTTA ATTTTA ATTTTA
1 ATTTTA ATTTTA ATTTTA
16805795 GTCAATGTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
6 40 0.78
7 11 0.22
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (6 bp):
ATTTTA
Found at i:16805774 original size:13 final size:13
Alignment explanation
Indices: 16805728--16805793 Score: 73
Period size: 13 Copynumber: 5.2 Consensus size: 13
16805718 TTTAATCTGA
16805728 TTTTAATTTTAA-
1 TTTTAATTTTAAT
**
16805740 TTTTGCTTTTAA-
1 TTTTAATTTTAAT
*
16805752 TTTCAATTTTAAT
1 TTTTAATTTTAAT
**
16805765 TTTTAATTTTTGT
1 TTTTAATTTTAAT
16805778 TTTTAATTTTAAT
1 TTTTAATTTTAAT
16805791 TTT
1 TTT
16805794 AGTCAATGTT
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
12 19 0.44
13 24 0.56
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:16807199 original size:56 final size:56
Alignment explanation
Indices: 16807132--16807533 Score: 271
Period size: 56 Copynumber: 7.4 Consensus size: 56
16807122 CACCTTTTAT
* ** *
16807132 TATAGACTTGTATGTTTTAATTTTTCTTGCCTATACCGATATTTAACGCTTGTCAA
1 TATAGACTTGTATGTTTTAATTTTTCTTACCTATACCGATGGTTAACGCCTGTCAA
* * * * *
16807188 TATAGACTTGTA--ATTT--TTTTT-TTACCTATACTGATGCTTAAAGCTTGTCAA
1 TATAGACTTGTATGTTTTAATTTTTCTTACCTATACCGATGGTTAACGCCTGTCAA
* * ** * * * * *
16807239 TATAGATTTTGTATGTTTTAA-TTTTCTTACATATACTAACGGTTAGCCCCCGTCAG
1 TATAGA-CTTGTATGTTTTAATTTTTCTTACCTATACCGATGGTTAACGCCTGTCAA
* *
16807295 TATAGACTTATATGTTTTAATTTTTCTCACCTATACCGATGGTTAACGCCTGTCAA
1 TATAGACTTGTATGTTTTAATTTTTCTTACCTATACCGATGGTTAACGCCTGTCAA
* ** * * * **
16807351 TATAGAC---T-TG---TAATTTTTTTTACCTATAGTGATGCTTAGCACCCATCAA
1 TATAGACTTGTATGTTTTAATTTTTCTTACCTATACCGATGGTTAACGCCTGTCAA
* * * *** * * * *
16807400 TATAAACTTGTATTTTTTAA-TTTTCTTATCTATA-CGACAATTAAAGACTGTTAG
1 TATAGACTTGTATGTTTTAATTTTTCTTACCTATACCGATGGTTAACGCCTGTCAA
* * * **
16807454 TATAGAATTGTATGCTTTAA-TTTTCTTACCTATACCGACGGTTAGA-GATTGTCAA
1 TATAGACTTGTATGTTTTAATTTTTCTTACCTATACCGATGGTTA-ACGCCTGTCAA
*
16807509 TATAGACTTATATGTTTTAATTTTT
1 TATAGACTTGTATGTTTTAATTTTT
16807534 TATTATATTT
Statistics
Matches: 262, Mismatches: 67, Indels: 34
0.72 0.18 0.09
Matches are distributed among these distances:
49 36 0.14
51 31 0.12
52 13 0.05
53 2 0.01
54 43 0.16
55 58 0.22
56 79 0.30
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (56 bp):
TATAGACTTGTATGTTTTAATTTTTCTTACCTATACCGATGGTTAACGCCTGTCAA
Found at i:16807473 original size:54 final size:55
Alignment explanation
Indices: 16807415--16807540 Score: 141
Period size: 55 Copynumber: 2.3 Consensus size: 55
16807405 ACTTGTATTT
* * *
16807415 TTTAATTTTCTTATCTATA-CGACAATTAAAGACTGTTAGTATAGAATTGTATGC
1 TTTAATTTTCTTATCTATACCGACAATTAAAGACTGTCAATATAGAATTATATGC
* ** * * * *
16807469 TTTAATTTTCTTACCTATACCGACGGTTAGAGATTGTCAATATAGACTTATATGT
1 TTTAATTTTCTTATCTATACCGACAATTAAAGACTGTCAATATAGAATTATATGC
16807524 TTTAATTTT-TTAT-TATA
1 TTTAATTTTCTTATCTATA
16807541 TTTTATTGAC
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
53 4 0.07
54 21 0.35
55 35 0.58
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (55 bp):
TTTAATTTTCTTATCTATACCGACAATTAAAGACTGTCAATATAGAATTATATGC
Found at i:16807834 original size:15 final size:15
Alignment explanation
Indices: 16807814--16807848 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
16807804 ATACCAAGTC
16807814 TGATAAAACAAACAT
1 TGATAAAACAAACAT
16807829 TGATAAAACAAACAT
1 TGATAAAACAAACAT
*
16807844 AGATA
1 TGATA
16807849 GAGAGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.20
Consensus pattern (15 bp):
TGATAAAACAAACAT
Found at i:16814287 original size:5 final size:5
Alignment explanation
Indices: 16814229--16814271 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
16814219 AAATATTTAT
* *
16814229 AAAAG AAAAG AAAAG AAAA- AAAAGG AAAGG AAAGG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG AAAAG AAA
16814272 GTTTTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
5 27 0.79
6 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:16815767 original size:3 final size:3
Alignment explanation
Indices: 16815759--16815826 Score: 127
Period size: 3 Copynumber: 22.3 Consensus size: 3
16815749 AATGAAAAAC
16815759 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16815807 AAT AAT AAT AAT ACAT AAT A
1 AAT AAT AAT AAT A-AT AAT A
16815827 GAGTAAAAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 61 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16816534 original size:34 final size:34
Alignment explanation
Indices: 16816487--16816652 Score: 138
Period size: 34 Copynumber: 4.9 Consensus size: 34
16816477 CATTTTCTAT
* * *
16816487 AAAATGCCACTATATTAGCAACGTTTGTATATGA
1 AAAATGCCGCTATATTAGCAGCGTTTGTATGTGA
* * * *
16816521 AAAATGCTGCTATATTAGCAGCATTTATATGTGG
1 AAAATGCCGCTATATTAGCAGCGTTTGTATGTGA
* *
16816555 AAAATGCCGCTATATTAGCGGTGTTTGTATGTGA
1 AAAATGCCGCTATATTAGCAGCGTTTGTATGTGA
* * * *** * * *
16816589 AAAATGTCGTTGTATTAATGGCATTTTTAT-CGA
1 AAAATGCCGCTATATTAGCAGCGTTTGTATGTGA
16816622 GAAAATGCCGCTATATTAGC-GACGTTTGTAT
1 -AAAATGCCGCTATATTAGCAG-CGTTTGTAT
16816653 CTTTGAGACG
Statistics
Matches: 101, Mismatches: 29, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
33 3 0.03
34 98 0.97
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (34 bp):
AAAATGCCGCTATATTAGCAGCGTTTGTATGTGA
Found at i:16816605 original size:68 final size:68
Alignment explanation
Indices: 16816487--16816652 Score: 192
Period size: 68 Copynumber: 2.4 Consensus size: 68
16816477 CATTTTCTAT
* * *
16816487 AAAATGCCACTATATTAGCAACGTTTGTATATGAAAAATGCTGCTATATTAGCAGCATTTATAT-
1 AAAATGCCGCTATATTAGCGACGTTTGTATATGAAAAATGCTGCTATATTAACAGCATTTATATC
*
16816551 GTGG
66 G-AG
** * * * ** *
16816555 AAAATGCCGCTATATTAGCGGTGTTTGTATGTGAAAAATG-TCGTTGTATTAATGGCATTTTTAT
1 AAAATGCCGCTATATTAGCGACGTTTGTATATGAAAAATGCT-GCTATATTAACAGCATTTATAT
16816619 CGAG
65 CGAG
16816623 AAAATGCCGCTATATTAGCGACGTTTGTAT
1 AAAATGCCGCTATATTAGCGACGTTTGTAT
16816653 CTTTGAGACG
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
67 1 0.01
68 80 0.98
69 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (68 bp):
AAAATGCCGCTATATTAGCGACGTTTGTATATGAAAAATGCTGCTATATTAACAGCATTTATATC
GAG
Found at i:16819276 original size:198 final size:199
Alignment explanation
Indices: 16818883--16819284 Score: 684
Period size: 199 Copynumber: 2.0 Consensus size: 199
16818873 TTTCAAATAT
*
16818883 AAATC-TTGATTGTAATAATACAAAAAGAAAAGTTTAAATCAATAAACCAAATTTAAAATAATTA
1 AAATCTTTGACTGTAATAATACAAAAAGAAAAGTTTAAATCAATAAACCAAATTTAAAATAATTA
16818947 ATTATTTATATGTAATTAATTATACTAATACCTCAATAAAGTTTAAAGCATCGACCTTAACTTCT
66 ATTATTTATATGTAATTAATTATACTAATACCTCAATAAAGTTTAAAGCATCGACCTTAACTTCT
* * *
16819012 GCTGGAACTTTTATGCCATGTTTCATAATGAATAGGCAATTTCATTCCATTACGAGCAAGCATGC
131 GCTAGAACTTTTATGCCATGTTTCATAATGAATAGGCAATTTCATTCAATTAAGAGCAAGCATGC
16819077 CTAG
196 CTAG
* *
16819081 AAATCTTTGACTGTAATAATATAAAAAGAAAAGTTTTAATCAATAAACCAAATTTAAAATAATTA
1 AAATCTTTGACTGTAATAATACAAAAAGAAAAGTTTAAATCAATAAACCAAATTTAAAATAATTA
* * * *
16819146 ATTTTTTATATGTAATTAATTATACTAATACCTTAATAAAGTTTAAAGCATCGGCCTTAACTTTT
66 ATTATTTATATGTAATTAATTATACTAATACCTCAATAAAGTTTAAAGCATCGACCTTAACTTCT
16819211 GCTAGAAC-TTTATGCCATGTTTCATAATGAATAGGCAATTTCATTCAATTATAG-GCAAGCATG
131 GCTAGAACTTTTATGCCATGTTTCATAATGAATAGGCAATTTCATTCAATTA-AGAGCAAGCATG
16819274 CCTAG
195 CCTAG
16819279 AAATCT
1 AAATCT
16819285 AGCCAACAAT
Statistics
Matches: 192, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
198 67 0.35
199 125 0.65
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (199 bp):
AAATCTTTGACTGTAATAATACAAAAAGAAAAGTTTAAATCAATAAACCAAATTTAAAATAATTA
ATTATTTATATGTAATTAATTATACTAATACCTCAATAAAGTTTAAAGCATCGACCTTAACTTCT
GCTAGAACTTTTATGCCATGTTTCATAATGAATAGGCAATTTCATTCAATTAAGAGCAAGCATGC
CTAG
Found at i:16824786 original size:19 final size:19
Alignment explanation
Indices: 16824762--16824854 Score: 80
Period size: 19 Copynumber: 4.7 Consensus size: 19
16824752 AAGCCAAACA
16824762 ATAAACAATTATATATAAT
1 ATAAACAATTATATATAAT
* *
16824781 ATAAACAATATATAAACAATT
1 ATAAACAAT-TATATATAA-T
* * * *
16824802 ATATATAATCTAAACA-ATAT
1 ATAAACAAT-TATATATA-AT
16824822 ATAAACAATTATATATAAT
1 ATAAACAATTATATATAAT
*
16824841 CTAAACAATTATAT
1 ATAAACAATTATAT
16824855 GAACCTTATT
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
19 28 0.48
20 17 0.29
21 13 0.22
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAACAATTATATATAAT
Found at i:16824793 original size:16 final size:16
Alignment explanation
Indices: 16824772--16824825 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
16824762 ATAAACAATT
16824772 ATATATAATATAAACA
1 ATATATAATATAAACA
* **
16824788 ATATATAA-A-CAATT
1 ATATATAATATAAACA
*
16824802 ATATATAATCTAAACA
1 ATATATAATATAAACA
16824818 ATATATAA
1 ATATATAA
16824826 ACAATTATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 10 0.34
15 1 0.03
16 18 0.62
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (16 bp):
ATATATAATATAAACA
Found at i:16824798 original size:30 final size:30
Alignment explanation
Indices: 16824762--16824854 Score: 168
Period size: 30 Copynumber: 3.1 Consensus size: 30
16824752 AAGCCAAACA
*
16824762 ATAAACAATTATATATAATATAAACAATAT
1 ATAAACAATTATATATAATCTAAACAATAT
16824792 ATAAACAATTATATATAATCTAAACAATAT
1 ATAAACAATTATATATAATCTAAACAATAT
16824822 ATAAACAATTATATATAATCTAAACAATTAT
1 ATAAACAATTATATATAATCTAAACAA-TAT
16824853 AT
1 AT
16824855 GAACCTTATT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 56 0.92
31 5 0.08
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (30 bp):
ATAAACAATTATATATAATCTAAACAATAT
Found at i:16824805 original size:14 final size:14
Alignment explanation
Indices: 16824762--16824839 Score: 66
Period size: 14 Copynumber: 5.3 Consensus size: 14
16824752 AAGCCAAACA
16824762 ATAAACAATTATAT
1 ATAAACAATTATAT
* **
16824776 ATAATATAAACAATAT
1 ATAA-A-CAATTATAT
16824792 ATAAACAATTATAT
1 ATAAACAATTATAT
* **
16824806 ATAATCTAAACAATAT
1 ATAAAC--AATTATAT
16824822 ATAAACAATTATAT
1 ATAAACAATTATAT
16824836 ATAA
1 ATAA
16824840 TCTAAACAAT
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
14 25 0.52
15 2 0.04
16 21 0.44
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAACAATTATAT
Found at i:16824806 original size:12 final size:11
Alignment explanation
Indices: 16824779--16824836 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
16824769 ATTATATATA
16824779 ATATAAACAAT
1 ATATAAACAAT
16824790 ATATAAACAAT
1 ATATAAACAAT
* *
16824801 -TATATA-TA-
1 ATATAAACAAT
*
16824809 ATCTAAACAAT
1 ATATAAACAAT
16824820 ATATAAACAATT
1 ATATAAACAA-T
16824832 ATATA
1 ATATA
16824837 TAATCTAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
9 5 0.14
10 6 0.16
11 20 0.54
12 6 0.16
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (11 bp):
ATATAAACAAT
Found at i:16825022 original size:19 final size:19
Alignment explanation
Indices: 16824998--16825083 Score: 124
Period size: 19 Copynumber: 4.6 Consensus size: 19
16824988 AGCCAAACAA
*
16824998 TAAACAATTATACATAATC
1 TAAACAATTATATATAATC
16825017 TAAACAA-TATATA-AA-C
1 TAAACAATTATATATAATC
16825033 AATAAACAATTATATATAATC
1 --TAAACAATTATATATAATC
16825054 TAAACAATTATATATAATC
1 TAAACAATTATATATAATC
16825073 TAAACAATTAT
1 TAAACAATTAT
16825084 CTAAACCTTA
Statistics
Matches: 61, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
16 1 0.02
17 2 0.03
18 12 0.20
19 43 0.70
20 2 0.03
21 1 0.02
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAACAATTATATATAATC
Found at i:16825034 original size:37 final size:38
Alignment explanation
Indices: 16824992--16825083 Score: 136
Period size: 37 Copynumber: 2.4 Consensus size: 38
16824982 CGAAAAAGCC
16824992 AAACAATAAACAATTATACATAATCTAAACAA-TATAT
1 AAACAATAAACAATTATACATAATCTAAACAATTATAT
*
16825029 AAACAATAAACAATTATATATAATCTAAACAATTATAT
1 AAACAATAAACAATTATACATAATCTAAACAATTATAT
16825067 ATAATC--TAAACAATTAT
1 A-AA-CAATAAACAATTAT
16825084 CTAAACCTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
37 31 0.61
38 17 0.33
39 2 0.04
40 1 0.02
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (38 bp):
AAACAATAAACAATTATACATAATCTAAACAATTATAT
Found at i:16825156 original size:31 final size:30
Alignment explanation
Indices: 16825117--16825174 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
16825107 TGCTTTATTA
16825117 TATATATTTAATTGA-AAAAGCCACCATATG
1 TATATATTTAATT-ACAAAAGCCACCATATG
* *
16825147 TATAGTATTTGATTACAAATGCCACCAT
1 TATA-TATTTAATTACAAAAGCCACCAT
16825175 CTTAAATCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (30 bp):
TATATATTTAATTACAAAAGCCACCATATG
Found at i:16826540 original size:64 final size:64
Alignment explanation
Indices: 16826470--16826626 Score: 273
Period size: 64 Copynumber: 2.5 Consensus size: 64
16826460 GCTAAAATTG
*
16826470 CCTTGAATAATTCTTCTTTAAATTTTTATGAATGGATTATTCAAGGTATTATTGGCCAAAAATA
1 CCTTGAATAATCCTTCTTTAAATTTTTATGAATGGATTATTCAAGGTATTATTGGCCAAAAATA
16826534 CCTTGAATAATCCTTCTTTAAATTTTTATGAATGGATTATTCAAGGTATTATTGGCCAAAAATA
1 CCTTGAATAATCCTTCTTTAAATTTTTATGAATGGATTATTCAAGGTATTATTGGCCAAAAATA
* *
16826598 CCTTGAATAATCC--CCTTCAATTTTTATGA
1 CCTTGAATAATCCTTCTTTAAATTTTTATGA
16826627 GGTAATTATT
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
62 14 0.16
64 76 0.84
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.41
Consensus pattern (64 bp):
CCTTGAATAATCCTTCTTTAAATTTTTATGAATGGATTATTCAAGGTATTATTGGCCAAAAATA
Found at i:16826700 original size:126 final size:125
Alignment explanation
Indices: 16826570--16826862 Score: 367
Period size: 126 Copynumber: 2.3 Consensus size: 125
16826560 TATGAATGGA
* * *
16826570 TTATTCAAGGTATTATTGGCCAAAAATACCTTGAATAATCCCCTTCAATTTTTATGAGGTA-ATT
1 TTATTGAAGGTATTTTTGGCCAAAAACACCTTGAATAATCCCCTTCAATTTTTATGAGG-AGATT
** *
16826634 ATTCAAGGCGTTTTT-GTCTA-AAAGATGTCTTGATTAATCCCTTACAAAAAAACTAAATGGGG
65 ATTCAAGGCGTTTTTGGT-TAGAAA-ACATCTTGAATAATCCCTTAC-AAAAAACTAAATGGGG
* * *
16826696 TTATTGAAAGTATTTTTGGTCAAAAACACCTTGAATAATCCCTTTCAATTTTTATGAGGAGATTA
1 TTATTGAAGGTATTTTTGGCCAAAAACACCTTGAATAATCCCCTTCAATTTTTATGAGGAGATTA
* * * * *
16826761 TTGAATGCGTTTTTGGTTAGAAAACATCTTGAATAATCCCTTACAAAATATTGAATGGGG
66 TTCAAGGCGTTTTTGGTTAGAAAACATCTTGAATAATCCCTTACAAAAAACTAAATGGGG
* * * *
16826821 TTATTGAAGGCATTTTTTGCCAAAAACGCCTTGAATATTCCC
1 TTATTGAAGGTATTTTTGGCCAAAAACACCTTGAATAATCCC
16826863 TTACAAAAAA
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
125 50 0.35
126 89 0.62
127 5 0.03
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (125 bp):
TTATTGAAGGTATTTTTGGCCAAAAACACCTTGAATAATCCCCTTCAATTTTTATGAGGAGATTA
TTCAAGGCGTTTTTGGTTAGAAAACATCTTGAATAATCCCTTACAAAAAACTAAATGGGG
Found at i:16826729 original size:63 final size:62
Alignment explanation
Indices: 16826662--16826874 Score: 198
Period size: 63 Copynumber: 3.4 Consensus size: 62
16826652 TAAAAGATGT
* * *
16826662 CTTGATTAATCCCTTACAAAAAAACTAAATGGGGTTATTGAAAGTATTTTTGGTCAAAAACAC
1 CTTGAATAATCCCTTAC-AAAAAATTAAATGGGGTTATTGAAAGCATTTTTGGTCAAAAACAC
* * ** * * *
16826725 CTTGAATAATCCCTTTC---AATTTTTATGAGGAGATTATTGAATGCGTTTTTGGTTAGAAAACA
1 CTTGAATAATCCCTTACAAAAAATTAAATG-GG-G-TTATTGAAAGCATTTTTGGTCA-AAAACA
*
16826787 T
62 C
* * * * * *
16826788 CTTGAATAATCCCTTACAAAATATTGAATGGGGTTATTGAAGGCATTTTTTGCCAAAAACGC
1 CTTGAATAATCCCTTACAAAAAATTAAATGGGGTTATTGAAAGCATTTTTGGTCAAAAACAC
*
16826850 CTTGAATATTCCCTTACAAAAAATT
1 CTTGAATAATCCCTTACAAAAAATT
16826875 GAAGGCATTT
Statistics
Matches: 118, Mismatches: 25, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
59 6 0.05
60 2 0.02
61 1 0.01
62 46 0.39
63 54 0.46
64 1 0.01
65 2 0.02
66 6 0.05
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (62 bp):
CTTGAATAATCCCTTACAAAAAATTAAATGGGGTTATTGAAAGCATTTTTGGTCAAAAACAC
Found at i:16827289 original size:16 final size:16
Alignment explanation
Indices: 16827270--16827305 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
16827260 ATTAATTAAT
16827270 AATTATAGTTTTTGAA
1 AATTATAGTTTTTGAA
16827286 AATTATAGTTTTTGAA
1 AATTATAGTTTTTGAA
16827302 AATT
1 AATT
16827306 TTTATTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (16 bp):
AATTATAGTTTTTGAA
Found at i:16827337 original size:26 final size:24
Alignment explanation
Indices: 16827308--16827363 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
16827298 TGAAAATTTT
16827308 TATTAGAAGAAAATATTATGAATTAA
1 TATTAGAA-AAAA-ATTATGAATTAA
**
16827334 TATTTTTTAAAAAAATTATGAATTAA
1 TA--TTAGAAAAAAATTATGAATTAA
16827360 TATT
1 TATT
16827364 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 2 0.08
26 16 0.62
27 4 0.15
28 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (24 bp):
TATTAGAAAAAAATTATGAATTAA
Found at i:16827364 original size:26 final size:27
Alignment explanation
Indices: 16827317--16827395 Score: 115
Period size: 26 Copynumber: 2.9 Consensus size: 27
16827307 TTATTAGAAG
*
16827317 AAAATATTATGAATTAATATTTTTT-A
1 AAAAAATTATGAATTAATATTTTTTAA
16827343 AAAAAATTATGAATTAATATTTTTTTAA
1 AAAAAATTATGAATTAATA-TTTTTTAA
* *
16827371 AAAAAATTAAGAATAAATATTTTTT
1 AAAAAATTATGAATTAATATTTTTT
16827396 GAGCTTATAC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
26 18 0.38
27 12 0.25
28 18 0.38
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (27 bp):
AAAAAATTATGAATTAATATTTTTTAA
Found at i:16827869 original size:20 final size:20
Alignment explanation
Indices: 16827814--16827860 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
16827804 ATATGTGTAT
*
16827814 TTGCATGATTGATAT-TACTAA
1 TTGCATGATT-ATATAT-TTAA
16827835 TTGCATGATTATATATTTAA
1 TTGCATGATTATATATTTAA
16827855 TTGCAT
1 TTGCAT
16827861 ATTTTTATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.47
Consensus pattern (20 bp):
TTGCATGATTATATATTTAA
Found at i:16827941 original size:18 final size:18
Alignment explanation
Indices: 16827913--16827986 Score: 62
Period size: 18 Copynumber: 4.0 Consensus size: 18
16827903 ATTACATAAT
16827913 TATTAATGTATTTGCATGA
1 TATT-ATGTATTTGCATGA
**
16827932 TATTATGTATTTATATGA
1 TATTATGTATTTGCATGA
*
16827950 TTGTTAT-TA-TTGCATGA
1 -TATTATGTATTTGCATGA
*
16827967 TAATTTATATATTTGCATGA
1 T-A-TTATGTATTTGCATGA
16827987 CATTCTTGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 1 0.02
17 6 0.14
18 18 0.41
19 11 0.25
20 8 0.18
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTATGTATTTGCATGA
Found at i:16830547 original size:14 final size:14
Alignment explanation
Indices: 16830528--16830557 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16830518 AAAGATAAGT
*
16830528 ATGAATAAAATATA
1 ATGAATAAAAAATA
16830542 ATGAATAAAAAATA
1 ATGAATAAAAAATA
16830556 AT
1 AT
16830558 ATCTGCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (14 bp):
ATGAATAAAAAATA
Found at i:16831195 original size:13 final size:14
Alignment explanation
Indices: 16831165--16831200 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
16831155 CATGCCTAGA
*
16831165 TCATGCTAAAATGT
1 TCATGCAAAAATGT
16831179 TCATGCAAAAATG-
1 TCATGCAAAAATGT
16831192 TCATGCAAA
1 TCATGCAAA
16831201 TATATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (14 bp):
TCATGCAAAAATGT
Found at i:16831217 original size:20 final size:19
Alignment explanation
Indices: 16831192--16831260 Score: 81
Period size: 18 Copynumber: 3.7 Consensus size: 19
16831182 TGCAAAAATG
16831192 TCATGCAAATATATTAATTA
1 TCATGCAAATATA-TAATTA
*
16831212 TCATGC-AATA-ATAATGA
1 TCATGCAAATATATAATTA
**
16831229 TCATATAAATATATAA-TA
1 TCATGCAAATATATAATTA
16831247 TCATGCAAATATAT
1 TCATGCAAATATAT
16831261 TAATAATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
17 9 0.22
18 18 0.44
19 8 0.20
20 6 0.15
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (19 bp):
TCATGCAAATATATAATTA
Found at i:16831231 original size:17 final size:18
Alignment explanation
Indices: 16831188--16831259 Score: 62
Period size: 19 Copynumber: 4.1 Consensus size: 18
16831178 TTCATGCAAA
16831188 AATG-TCATGCAAATATATT
1 AATGATCATGC-AATATA-T
*
16831207 AATTATCATGCAATA-AT
1 AATGATCATGCAATATAT
**
16831224 AATGATCATATAAATATAT
1 AATGATCAT-GCAATATAT
16831243 AAT-ATCATGCAA-ATAT
1 AATGATCATGCAATATAT
16831259 A
1 A
16831260 TTAATAATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 5 0.11
17 11 0.25
18 10 0.23
19 12 0.27
20 6 0.14
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.35
Consensus pattern (18 bp):
AATGATCATGCAATATAT
Found at i:16831360 original size:24 final size:20
Alignment explanation
Indices: 16831306--16831347 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
16831296 TACACACAAC
* *
16831306 AAATATAAAAATATGCAATT
1 AAATATATAATTATGCAATT
16831326 AAATATATAATTATGCAATT
1 AAATATATAATTATGCAATT
16831346 AA
1 AA
16831348 TAATATCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATATATAATTATGCAATT
Found at i:16832433 original size:20 final size:21
Alignment explanation
Indices: 16832400--16832438 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
16832390 GCAAATTTTC
*
16832400 TTTTTTTGTCCTTT-TTAATT
1 TTTTTTTGTACTTTGTTAATT
*
16832420 TTTTTTTTTACTTTGTTAA
1 TTTTTTTGTACTTTGTTAA
16832439 CCTTGACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTTTTGTACTTTGTTAATT
Found at i:16833991 original size:6 final size:7
Alignment explanation
Indices: 16833974--16834000 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
16833964 ATGAGCAATG
16833974 AAAAATT
1 AAAAATT
16833981 AAAAATT
1 AAAAATT
16833988 AAAAATT
1 AAAAATT
16833995 AAAAAT
1 AAAAAT
16834001 GACATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:16834673 original size:17 final size:17
Alignment explanation
Indices: 16834651--16834700 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
16834641 TGCAAAAAAA
16834651 AAGAAAAAAAAAGAGAC
1 AAGAAAAAAAAAGAGAC
*
16834668 AAGAAAAAAAAGAAGAGAG
1 AAG-AAAAAAA-AAGAGAC
16834687 AA-AAAACAAAAAGA
1 AAGAAAA-AAAAAGA
16834701 AAAAGAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 11 0.38
18 10 0.34
19 8 0.28
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAGAGAC
Found at i:16834678 original size:19 final size:18
Alignment explanation
Indices: 16834654--16834736 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 18
16834644 AAAAAAAAAG
16834654 AAAAAAAAAGAGACAAGAA
1 AAAAAAAAAGAGA-AAGAA
16834673 AAAAAAGAAGAGAGAAA-AA
1 AAAAAA-AA-AGAGAAAGAA
*
16834692 ACAAAAAGAAAAAG-AAGAA
1 A-AAAAA-AAAGAGAAAGAA
*
16834711 AGAAAATAAAATAG-AAGAA
1 A-AAAA-AAAAGAGAAAGAA
16834730 AAAAAAA
1 AAAAAAA
16834737 TGTTTTATTG
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
17 2 0.04
18 6 0.11
19 30 0.54
20 13 0.23
21 5 0.09
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAGAGAAAGAA
Found at i:16834695 original size:26 final size:26
Alignment explanation
Indices: 16834644--16834716 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
16834634 TGGGGTGTGC
*
16834644 AAAAAAAAAGAA-AAAAAAAGAGACA
1 AAAAAAAAAGAAGAAGAAAAGAGACA
16834669 AGAAAAAAAAGAAGAGAGAAAA-A-ACA
1 A-AAAAAAAAGAAGA-AGAAAAGAGACA
16834695 AAAAGAAAAAGAAGAAAGAAAA
1 AAAA-AAAAAGAAG-AAGAAAA
16834717 TAAAATAGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
25 4 0.10
26 30 0.71
27 3 0.07
28 5 0.12
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAGAAGAAGAAAAGAGACA
Found at i:16834704 original size:42 final size:42
Alignment explanation
Indices: 16834644--16834736 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
16834634 TGGGGTGTGC
16834644 AAAAAAAAAGAAAAAAAAAG-AGACAAGAAAA-AAAAGAAGAGAG
1 AAAAAAAAAGAAAAAAAAAGAAGA-AAGAAAATAAAA-AAGA-AG
* * *
16834687 AAAAAACAA-AAAGAAAAAGAAGAAAGAAAATAAAATAGAAG
1 AAAAAAAAAGAAAAAAAAAGAAGAAAGAAAATAAAAAAGAAG
16834728 AAAAAAAAA
1 AAAAAAAAA
16834737 TGTTTTATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
41 10 0.23
42 19 0.43
43 15 0.34
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (42 bp):
AAAAAAAAAGAAAAAAAAAGAAGAAAGAAAATAAAAAAGAAG
Found at i:16835293 original size:18 final size:19
Alignment explanation
Indices: 16835256--16835312 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
16835246 TGAGACAATG
*
16835256 AAAAAAAGGAGAAAAGGAA
1 AAAAAAAGAAGAAAAGGAA
*
16835275 AAAAAAAGAATAAAA-G-A
1 AAAAAAAGAAGAAAAGGAA
* * *
16835292 AAAGAAGGAAGGAAAGGAA
1 AAAAAAAGAAGAAAAGGAA
16835311 AA
1 AA
16835313 GGACAAAGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
17 12 0.40
18 2 0.07
19 16 0.53
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.02
Consensus pattern (19 bp):
AAAAAAAGAAGAAAAGGAA
Found at i:16836958 original size:26 final size:27
Alignment explanation
Indices: 16836910--16836970 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
16836900 TCACATGAAC
*
16836910 ATTTGCATCAGAAAAAGATATTTGC-T
1 ATTTGCATCAGAAAAAGACATTTGCAT
16836936 -TTTGCATCAAGAAAAAGACATTTGCAT
1 ATTTGCATC-AGAAAAAGACATTTGCAT
16836963 ATTTGCAT
1 ATTTGCAT
16836971 ATTTGTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 8 0.26
26 15 0.48
27 1 0.03
28 7 0.23
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (27 bp):
ATTTGCATCAGAAAAAGACATTTGCAT
Found at i:16837610 original size:40 final size:40
Alignment explanation
Indices: 16837393--16838148 Score: 312
Period size: 40 Copynumber: 18.9 Consensus size: 40
16837383 AGACCACCTA
*
16837393 GCAAAATCTTAAA-TTTTAAATGATATT-CAAGACCTCTGG
1 GCAAAATCTTAAATTTTTGAATGAT-TTCCAAGACCTCTGG
* * * * ***
16837432 GCAAAATTTTAAATTTTTAGAAAGATTTGCAAAACCTCCAA
1 GCAAAATCTTAAATTTTT-GAATGATTTCCAAGACCTCTGG
*** * ** * *
16837473 GTGGAATTTTAAATTTTTGAACAATTTCCAAGACCTTTAG
1 GCAAAATCTTAAATTTTTGAATGATTTCCAAGACCTCTGG
*** * * ** *
16837513 GTTGAAT-TTTAGTTTTTGAAAAATTATCCAAGACCTAC-AG
1 GCAAAATCTTAAATTTTTGAATGATT-TCCAAGACCT-CTGG
* * ** * *
16837553 GAAAAATCCTAAA-TTTTGAATGATTTCTTATACCTTTGG
1 GCAAAATCTTAAATTTTTGAATGATTTCCAAGACCTCTGG
* * *
16837592 GCAAAATCTCAAATTTTTGAATAATTTCCAAGACCTCTAG
1 GCAAAATCTTAAATTTTTGAATGATTTCCAAGACCTCTGG
* * * ** * *
16837632 GTAGAATTTTAAATTTTTTGAAAAATATCCAAGACCTTTGG
1 GCAAAATCTTAAA-TTTTTGAATGATTTCCAAGACCTCTGG
* * * *
16837673 GCAAAATCTTTAATTTTTGAATGATTTCTAGGACCTCCT-A
1 GCAAAATCTTAAATTTTTGAATGATTTCCAAGACCT-CTGG
* * *
16837713 GCAAAATGTTAAATTTTTGAATGATCTCCAAGACCTCT-A
1 GCAAAATCTTAAATTTTTGAATGATTTCCAAGACCTCTGG
* * * * **
16837752 ACAAAATCTTAAATTTTTGAATGATTTCTAAAATCT-TCAA
1 GCAAAATCTTAAATTTTTGAATGATTTCCAAGACCTCT-GG
* * * * * *
16837792 GCAAAATGTTAGATTTTTTAATGATCTCTAAGACCTGTGG
1 GCAAAATCTTAAATTTTTGAATGATTTCCAAGACCTCTGG
* * * ***
16837832 GCAAAATATTAAAATTTTGAATGATTTCCAATACCTCCAA
1 GCAAAATCTTAAATTTTTGAATGATTTCCAAGACCTCTGG
* * * * ** * *
16837872 GTATAATTTTAAATTTTTGAAAAGATTTGTAAGA-CTTTCGA
1 GCAAAATCTTAAATTTTTG-AATGATTTCCAAGACCTCT-GG
* * * ** * * **
16837913 GTATAAT-TTAAAATTTTGAACAATTTTCAAGATCTCTAA
1 GCAAAATCTTAAATTTTTGAATGATTTCCAAGACCTCTGG
* * * ** * * * ***
16837952 GTAGAATTTTAAATTTTTGAAAAAATATCCAAGTCTTCCAA
1 GCAAAATCTTAAATTTTTG-AATGATTTCCAAGACCTCTGG
* ***
16837993 GTAAAA-CATTAAATTTTTGAATG-TTCTCCAAGACCTCCAA
1 GCAAAATC-TTAAATTTTTGAATGATT-TCCAAGACCTCTGG
* ** * *
16838033 GCAAAATCTTAAATTTTTGAATGGTTTTGAAGACCTTTAG
1 GCAAAATCTTAAATTTTTGAATGATTTCCAAGACCTCTGG
* * ** * **
16838073 GCAAATTCTTAGACATTTGAATGATTTTCAAGACCTCCAG
1 GCAAAATCTTAAATTTTTGAATGATTTCCAAGACCTCTGG
* * *
16838113 GCATAATTTTAAGTTTTTGAATGATTTCCAAGACCT
1 GCAAAATCTTAAATTTTTGAATGATTTCCAAGACCT
16838149 TTGGACATAA
Statistics
Matches: 545, Mismatches: 150, Indels: 43
0.74 0.20 0.06
Matches are distributed among these distances:
38 1 0.00
39 96 0.18
40 333 0.61
41 115 0.21
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (40 bp):
GCAAAATCTTAAATTTTTGAATGATTTCCAAGACCTCTGG
Found at i:16837688 original size:41 final size:41
Alignment explanation
Indices: 16837584--16837690 Score: 119
Period size: 41 Copynumber: 2.6 Consensus size: 41
16837574 GATTTCTTAT
* * * *
16837584 ACCTTTGGGCAAAATC-TCAAATTTTTGAATAATTTCCAAG
1 ACCTTTGGGCAAAATCTTTAATTTTTTGAAAAATATCCAAG
* * * *
16837624 ACCTCTAGGTAGAAT-TTTAAATTTTTTGAAAAATATCCAAG
1 ACCTTTGGGCAAAATCTTT-AATTTTTTGAAAAATATCCAAG
16837665 ACCTTTGGGCAAAATCTTTAATTTTT
1 ACCTTTGGGCAAAATCTTTAATTTTT
16837691 GAATGATTTC
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
40 12 0.23
41 37 0.71
42 3 0.06
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (41 bp):
ACCTTTGGGCAAAATCTTTAATTTTTTGAAAAATATCCAAG
Found at i:16837727 original size:121 final size:118
Alignment explanation
Indices: 16837415--16837751 Score: 329
Period size: 121 Copynumber: 2.8 Consensus size: 118
16837405 ATTTTAAATG
* * * * * ***
16837415 ATATTCAAGACCTCTGGGCAAAAT-TTTAAATTTTTAGAAAGATTTGCAAAACCTCCAAGTGGAA
1 ATATCCAAGACCTATGGGCAAAATCTTT-AATTTTT-GAATGATTT-CTAAACCTCCTAGCAAAA
* * * *
16837479 TTTTAAATTTTTGAACAATTTCCAAGACCTTTAGGTTGAATTTTAGTTTTTGAAAA
63 TCTTAAATTTTTGAATAATTTCCAAGACCTCTAGGTAGAATTTTAGTTTTTGAAAA
** * * * * * *
16837535 ATTATCCAAGACCTACAGGAAAAATC-CTAAATTTTGAATGATTTCTTATACCT-TTGGGCAAAA
1 A-TATCCAAGACCTATGGGCAAAATCTTTAATTTTTGAATGATTTC-TAAACCTCCT-AGCAAAA
* *
16837598 TCTCAAATTTTTGAATAATTTCCAAGACCTCTAGGTAGAATTTTAAATTTTTTGAAAA
63 TCTTAAATTTTTGAATAATTTCCAAGACCTCTAGGTAGAATTTT--AGTTTTTGAAAA
* * *
16837656 ATATCCAAGACCTTTGGGCAAAATCTTTAATTTTTGAATGATTTCTAGGACCTCCTAGCAAAATG
1 ATATCCAAGACCTATGGGCAAAATCTTTAATTTTTGAATGATTTCTA-AACCTCCTAGCAAAATC
* *
16837721 TTAAATTTTTGAATGATCTCCAAGACCTCTA
65 TTAAATTTTTGAATAATTTCCAAGACCTCTA
16837752 ACAAAATCTT
Statistics
Matches: 173, Mismatches: 35, Indels: 17
0.77 0.16 0.08
Matches are distributed among these distances:
118 1 0.01
119 55 0.32
120 29 0.17
121 87 0.50
122 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.36
Consensus pattern (118 bp):
ATATCCAAGACCTATGGGCAAAATCTTTAATTTTTGAATGATTTCTAAACCTCCTAGCAAAATCT
TAAATTTTTGAATAATTTCCAAGACCTCTAGGTAGAATTTTAGTTTTTGAAAA
Found at i:16838171 original size:40 final size:40
Alignment explanation
Indices: 16838007--16838173 Score: 119
Period size: 40 Copynumber: 4.2 Consensus size: 40
16837997 AACATTAAAT
* * * **
16838007 TTTTGAATG-TTCTCCAAGACCTCCAAGCAAAATCTTAAAT
1 TTTTGAATGATT-TCCAAGACCTCCAGGCATAATTTTAAGC
* ** **
16838047 TTTTGAATGGTTTTGAAGACCTTTAGGCA-AATTCTT-AGAC
1 TTTTGAATGATTTCCAAGACCTCCAGGCATAATT-TTAAG-C
* * *
16838087 ATTTGAATGATTTTCAAGACCTCCAGGCATAATTTTAAGT
1 TTTTGAATGATTTCCAAGACCTCCAGGCATAATTTTAAGC
**
16838127 TTTTGAATGATTTCCAAGACCT-TTGGACATAATTTTGAA-C
1 TTTTGAATGATTTCCAAGACCTCCAGG-CATAATTTT-AAGC
16838167 TTTTGAA
1 TTTTGAA
16838174 GGCTTAAAAA
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
39 6 0.06
40 85 0.84
41 10 0.10
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (40 bp):
TTTTGAATGATTTCCAAGACCTCCAGGCATAATTTTAAGC
Found at i:16838172 original size:80 final size:80
Alignment explanation
Indices: 16837382--16838173 Score: 426
Period size: 80 Copynumber: 9.9 Consensus size: 80
16837372 AAAGACCATT
* * * * * *
16837382 AAGACCACCTAGCAAAATCTTAAA-TTTTAAATGATATT-CAAGACCTCTGGGCAAAATTTTAAA
1 AAGACCTCCAAGCAAAATTTTAAATTTTTGAATGAT-TTCCAAGACCTTTGGACAAAATTTTAAA
* *
16837445 TTTTTAGAAAGATTTGC
65 TTTTT-GAATGATTTTC
* *** ** *** *
16837462 AAAACCTCCAAGTGGAATTTTAAATTTTTGAACAATTTCCAAGACCTTTAGG-TTGAATTTT-AG
1 AAGACCTCCAAGCAAAATTTTAAATTTTTGAATGATTTCCAAGACCTTT-GGACAAAATTTTAAA
** *
16837525 TTTTTGAAAAATTATCC
65 TTTTTGAATGATT-TTC
* * * ** ** * * * *
16837542 AAGACCTACAGGAAAAATCCTAAA-TTTTGAATGATTTCTTATACCTTTGGGCAAAATCTCAAAT
1 AAGACCTCCAAGCAAAATTTTAAATTTTTGAATGATTTCCAAGACCTTTGGACAAAATTTTAAAT
* *
16837606 TTTTGAATAATTTCC
66 TTTTGAATGATTTTC
* * * * ** * *
16837621 AAGACCTCTAGGTAGAATTTTAAATTTTTTGAAAAATATCCAAGACCTTTGGGCAAAATCTTT-A
1 AAGACCTCCAAGCAAAATTTTAAA-TTTTTGAATGATTTCCAAGACCTTTGGACAAAAT-TTTAA
16837685 ATTTTTGAATGA-TTTC
64 ATTTTTGAATGATTTTC
* * * * * * *
16837701 TAGGACCTCCTAGCAAAATGTTAAATTTTTGAATGATCTCCAAGACCTCT-AACAAAATCTTAAA
1 -AAGACCTCCAAGCAAAATTTTAAATTTTTGAATGATTTCCAAGACCTTTGGACAAAATTTTAAA
16837765 TTTTTGAATGA-TTTC
65 TTTTTGAATGATTTTC
* * * * * * * * * * *
16837780 TAAAATCTTCAAGCAAAATGTTAGATTTTTTAATGATCTCTAAGACCTGTGGGCAAAATATTAAA
1 -AAGACCTCCAAGCAAAATTTTAAATTTTTGAATGATTTCCAAGACCTTTGGACAAAATTTTAAA
* *
16837845 ATTTTGAATGATTTCC
65 TTTTTGAATGATTTTC
* * * * ** * * *
16837861 AATACCTCCAAGTATAATTTTAAATTTTTGAAAAGATTTGTAAGA-CTTTCGAGTATAA-TTTAA
1 AAGACCTCCAAGCAAAATTTTAAATTTTTG-AATGATTTCCAAGACCTTTGGA-CAAAATTTTAA
* **
16837924 AATTTTGAACAATTTTC
64 ATTTTTGAATGATTTTC
* * * * ** * * *** * **
16837941 AAGATCTCTAAGTAGAATTTTAAATTTTTGAAAAAATATCCAAG-TCTTCCAAGTAAAACATTAA
1 AAGACCTCCAAGCAAAATTTTAAATTTTTG-AATGATTTCCAAGACCTTTGGA-CAAAATTTTAA
*
16838005 ATTTTTGAATG-TTCTCC
64 ATTTTTGAATGATT-TTC
* * ** *
16838022 AAGACCTCCAAGCAAAATCTTAAATTTTTGAATGGTTTTGAAGACCTTTAGG-C-AAATTCTTAG
1 AAGACCTCCAAGCAAAATTTTAAATTTTTGAATGATTTCCAAGACCTTT-GGACAAAATT-TTAA
**
16838085 ACATTTGAATGATTTTC
64 ATTTTTGAATGATTTTC
* * * * * *
16838102 AAGACCTCCAGGCATAATTTTAAGTTTTTGAATGATTTCCAAGACCTTTGGACATAATTTTGAAC
1 AAGACCTCCAAGCAAAATTTTAAATTTTTGAATGATTTCCAAGACCTTTGGACAAAATTTTAAAT
16838167 TTTTGAA
66 TTTTGAA
16838174 GGCTTAAAAA
Statistics
Matches: 538, Mismatches: 150, Indels: 48
0.73 0.20 0.07
Matches are distributed among these distances:
78 4 0.01
79 120 0.22
80 267 0.50
81 144 0.27
82 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (80 bp):
AAGACCTCCAAGCAAAATTTTAAATTTTTGAATGATTTCCAAGACCTTTGGACAAAATTTTAAAT
TTTTGAATGATTTTC
Found at i:16840900 original size:61 final size:61
Alignment explanation
Indices: 16840805--16840923 Score: 211
Period size: 61 Copynumber: 2.0 Consensus size: 61
16840795 ATACTATATG
* *
16840805 AAGTTTTTAAAGGAATTAGTATAAAAGTCCCAAGTAAAGAAATATTCTTCAAAGTTCTGCC
1 AAGTTTTTAAAGGAATTAGTATAAAAATCCCAAGTAAAGAAATATTCTTCAAAATTCTGCC
*
16840866 AAGTTTTTGAAGGAATTAGTATAAAAATCCCAAGTAAAGAAATATTCTTCAAAATTCT
1 AAGTTTTTAAAGGAATTAGTATAAAAATCCCAAGTAAAGAAATATTCTTCAAAATTCT
16840924 ATCTAGATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (61 bp):
AAGTTTTTAAAGGAATTAGTATAAAAATCCCAAGTAAAGAAATATTCTTCAAAATTCTGCC
Found at i:16840937 original size:61 final size:61
Alignment explanation
Indices: 16840814--16840944 Score: 192
Period size: 61 Copynumber: 2.2 Consensus size: 61
16840804 GAAGTTTTTA
* * * * *
16840814 AAGGAATTAGTATAAAAGTCCCAAGTAAAGAAATATTCTTCAAAGTTCTGCCAAGTTTTTG
1 AAGGAATTAGTATAAAAATCCCAAGTAAAGAAATATTCTTCAAAATTCTACCAAGATATTG
* *
16840875 AAGGAATTAGTATAAAAATCCCAAGTAAAGAAATATTCTTCAAAATTCTATCTAGATATTG
1 AAGGAATTAGTATAAAAATCCCAAGTAAAGAAATATTCTTCAAAATTCTACCAAGATATTG
16840936 AA-GAATTAG
1 AAGGAATTAG
16840945 AAAATGTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
60 7 0.11
61 56 0.89
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.31
Consensus pattern (61 bp):
AAGGAATTAGTATAAAAATCCCAAGTAAAGAAATATTCTTCAAAATTCTACCAAGATATTG
Found at i:16842284 original size:20 final size:20
Alignment explanation
Indices: 16842240--16842289 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
16842230 CAAATCATGC
16842240 AATCATGCAATAATTATAAA
1 AATCATGCAATAATTATAAA
*
16842260 AATCACGCAATAA-TATAAGA
1 AATCATGCAATAATTATAA-A
*
16842280 TATCATGCAA
1 AATCATGCAA
16842290 AAACTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.26
Consensus pattern (20 bp):
AATCATGCAATAATTATAAA
Found at i:16842461 original size:19 final size:20
Alignment explanation
Indices: 16842437--16842481 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
16842427 CATCTCGCAA
16842437 AAATAATAAAT-AATCATGC
1 AAATAATAAATAAATCATGC
16842456 AAATAATAAATAAATCATGC
1 AAATAATAAATAAATCATGC
16842476 AAATAA
1 AAATAA
16842482 ATATAGTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.24
Consensus pattern (20 bp):
AAATAATAAATAAATCATGC
Found at i:16842515 original size:20 final size:19
Alignment explanation
Indices: 16842449--16842520 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 19
16842439 ATAATAAATA
* *
16842449 ATCATGCAAATAATAAATAA
1 ATCATGCAAATAA-ATATAG
16842469 ATCATGCAAATAAATATAG
1 ATCATGCAAATAAATATAG
*
16842488 -TCTAATGCAATTAAATATATG
1 ATC--ATGCAAATAAATATA-G
16842509 ATCATGCAAATA
1 ATCATGCAAATA
16842521 TATTTTATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.05
19 4 0.09
20 35 0.80
21 1 0.02
22 2 0.05
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.29
Consensus pattern (19 bp):
ATCATGCAAATAAATATAG
Found at i:16843255 original size:26 final size:26
Alignment explanation
Indices: 16843206--16843260 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
16843196 CTAGAGATTG
*
16843206 AAACTTCCTAAAACAAAAAAATTTGA
1 AAACTTCCTAAAACAAAAAAATTTCA
**
16843232 AAACTTCC-AAAATCAAAACTATTTCA
1 AAACTTCCTAAAA-CAAAAAAATTTCA
16843258 AAA
1 AAA
16843261 ACCCAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.56, C:0.18, G:0.02, T:0.24
Consensus pattern (26 bp):
AAACTTCCTAAAACAAAAAAATTTCA
Found at i:16843624 original size:15 final size:15
Alignment explanation
Indices: 16843590--16843635 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
16843580 AATTCCCATA
**
16843590 TTTTTCTTTTGATTT
1 TTTTTCTTTTTTTTT
16843605 TTTTTCTTTTTTTTT
1 TTTTTCTTTTTTTTT
16843620 CTTTTTACTTTTTTTT
1 -TTTTT-CTTTTTTTT
16843636 ACTATTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 13 0.48
16 5 0.19
17 9 0.33
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.85
Consensus pattern (15 bp):
TTTTTCTTTTTTTTT
Found at i:16843702 original size:6 final size:6
Alignment explanation
Indices: 16843688--16843739 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
16843678 ATTAAACCAA
* *
16843688 AAAAAT AAAATT AAAATT AAAATT AAAA-T AAGAACT AAAAGTT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AA-AATT AAAA-TT AAAATT
16843737 AAA
1 AAA
16843740 CTCAACTAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 3 0.07
6 30 0.73
7 8 0.20
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (6 bp):
AAAATT
Found at i:16843715 original size:25 final size:27
Alignment explanation
Indices: 16843687--16843739 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
16843677 GATTAAACCA
*
16843687 AAAAAATAA-AATTAAAA-TTAAAATT
1 AAAAAATAAGAACTAAAAGTTAAAATT
16843712 --AAAATAAGAACTAAAAGTTAAAATT
1 AAAAAATAAGAACTAAAAGTTAAAATT
16843737 AAA
1 AAA
16843740 CTCAACTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
23 7 0.30
24 7 0.30
25 8 0.35
27 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (27 bp):
AAAAAATAAGAACTAAAAGTTAAAATT
Found at i:16844059 original size:44 final size:42
Alignment explanation
Indices: 16844006--16844179 Score: 141
Period size: 39 Copynumber: 4.3 Consensus size: 42
16843996 CTCCTCATTA
* *
16844006 GAGGCTTGAAACTTTCAAAAAATAAAAATTCTGCC-CCATAACT
1 GAGGCTTGAAACTTTCAAAAAAT-AAAATGCT-CCACCACAACT
** *
16844049 GAGGCATTGAAACTTTTGAAAAGTAAAATGCTCCACCACAACT
1 GAGGC-TTGAAACTTTCAAAAAATAAAATGCTCCACCACAACT
* *
16844092 GAGGCTTGAAACTTT---TAAATAAAATGTTCTC-CCACAACT
1 GAGGCTTGAAACTTTCAAAAAATAAAATGCTC-CACCACAACT
* * * * *
16844131 AAGACTTGAAACTTTC----AATAAAATGCTCCTCAATAACT
1 GAGGCTTGAAACTTTCAAAAAATAAAATGCTCCACCACAACT
16844169 GAGGCTTGAAA
1 GAGGCTTGAAA
16844180 TTTTAAATGC
Statistics
Matches: 111, Mismatches: 15, Indels: 15
0.79 0.11 0.11
Matches are distributed among these distances:
37 1 0.01
38 26 0.23
39 32 0.29
40 1 0.01
42 12 0.11
43 24 0.22
44 15 0.14
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (42 bp):
GAGGCTTGAAACTTTCAAAAAATAAAATGCTCCACCACAACT
Found at i:16844092 original size:43 final size:39
Alignment explanation
Indices: 16844006--16844186 Score: 163
Period size: 38 Copynumber: 4.5 Consensus size: 39
16843996 CTCCTCATTA
* * *
16844006 GAGGCTTGAAACTTTCAAAAAATAAAAATTCTGCCCCATAACT
1 GAGGCTTGAAACTTT--TAAAAT-AAAATGCT-CCCCACAACT
16844049 GAGGCATTGAAACTTTTGAAAAGTAAAATGCTCCACCACAACT
1 GAGGC-TTGAAACTTTT-AAAA-TAAAATGCTCC-CCACAACT
*
16844092 GAGGCTTGAAACTTTT-AAATAAAATGTTCTCCCACAACT
1 GAGGCTTGAAACTTTTAAAATAAAATGCTC-CCCACAACT
* * * * *
16844131 AAGACTTGAAAC-TTT-CAATAAAATGCTCCTCAATAACT
1 GAGGCTTGAAACTTTTAAAATAAAATGCTCC-CCACAACT
16844169 GAGGCTTGAAA-TTTTAAA
1 GAGGCTTGAAACTTTTAAA
16844187 TGCTATGCTA
Statistics
Matches: 117, Mismatches: 13, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
37 1 0.01
38 32 0.27
39 28 0.24
40 4 0.03
42 13 0.11
43 28 0.24
44 11 0.09
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (39 bp):
GAGGCTTGAAACTTTTAAAATAAAATGCTCCCCACAACT
Found at i:16844177 original size:38 final size:37
Alignment explanation
Indices: 16844040--16844226 Score: 152
Period size: 38 Copynumber: 4.9 Consensus size: 37
16844030 AAAATTCTGC
*
16844040 CCCATAACTGAGGCATTGAAACTTTTGAAAAGTAAAATGCT
1 CCCACAACTGAGGC-TTGAAACTTTT--AAA-TAAAATGCT
16844081 CCACCACAACTGAGGCTTGAAACTTTTAAATAAAATGTTCT
1 -C-CCACAACTGAGGCTTGAAACTTTTAAATAAAATG--CT
* * *
16844122 CCCACAACTAAGACTTGAAAC-TTTCAATAAAATGCT
1 CCCACAACTGAGGCTTGAAACTTTTAAATAAAATGCT
* ***
16844158 CCTCAATAACTGAGGCTTGAAA-TTTTAAATGCTATGCT
1 CC-C-ACAACTGAGGCTTGAAACTTTTAAATAAAATGCT
* *
16844196 ---ACAATTGAGGCTTGAAAC-TTTAAACAAAATG
1 CCCACAACTGAGGCTTGAAACTTTTAAATAAAATG
16844227 AAAGAGAATA
Statistics
Matches: 121, Mismatches: 17, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
33 24 0.20
36 4 0.03
37 1 0.01
38 37 0.31
39 25 0.21
40 4 0.03
41 2 0.02
42 12 0.10
43 12 0.10
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (37 bp):
CCCACAACTGAGGCTTGAAACTTTTAAATAAAATGCT
Found at i:16844682 original size:24 final size:23
Alignment explanation
Indices: 16844650--16844700 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
16844640 CAAGACTTTT
*
16844650 CTTCATATTTTCTCTCATTTTTAG
1 CTTCATATTATCT-TCATTTTTAG
* * *
16844674 CTTCCTATTATGTTCTTTTTTAG
1 CTTCATATTATCTTCATTTTTAG
16844697 CTTC
1 CTTC
16844701 TTTAGCCAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.14, C:0.22, G:0.06, T:0.59
Consensus pattern (23 bp):
CTTCATATTATCTTCATTTTTAG
Found at i:16845598 original size:17 final size:19
Alignment explanation
Indices: 16845562--16845598 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
16845552 TTCTTCATAA
*
16845562 TTCTCTTTTTCAATTTTTT
1 TTCTCTTTTTCAATTCTTT
16845581 TTCT-TTTTTC-ATTCTTT
1 TTCTCTTTTTCAATTCTTT
16845598 T
1 T
16845599 CATTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 6 0.35
19 4 0.24
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTCTCTTTTTCAATTCTTT
Found at i:16846738 original size:25 final size:24
Alignment explanation
Indices: 16846701--16846748 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
16846691 CAAAAACTAA
* *
16846701 AGTTTTTTCTTTAGTATTTTTGTTG
1 AGTTTATTCTTTAAT-TTTTTGTTG
*
16846726 AGTTTATTGTTTAATTTTTTGTT
1 AGTTTATTCTTTAATTTTTTGTT
16846749 TAGGATTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.15, C:0.02, G:0.15, T:0.69
Consensus pattern (24 bp):
AGTTTATTCTTTAATTTTTTGTTG
Found at i:16846747 original size:12 final size:12
Alignment explanation
Indices: 16846701--16846751 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
16846691 CAAAAACTAA
*
16846701 AGTTTTTTCTTT
1 AGTTTTTTGTTT
*
16846713 AGTATTTTTGTTG
1 AGT-TTTTTGTTT
*
16846726 AGTTTATTGTTT
1 AGTTTTTTGTTT
*
16846738 AATTTTTTGTTT
1 AGTTTTTTGTTT
16846750 AG
1 AG
16846752 GATTTGTTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
12 21 0.68
13 10 0.32
ACGTcount: A:0.16, C:0.02, G:0.16, T:0.67
Consensus pattern (12 bp):
AGTTTTTTGTTT
Found at i:16849695 original size:16 final size:16
Alignment explanation
Indices: 16849674--16849705 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16849664 GATTAGATCT
16849674 ATAAAAGCTCTTTTTC
1 ATAAAAGCTCTTTTTC
*
16849690 ATAAAAGCTTTTTTTC
1 ATAAAAGCTCTTTTTC
16849706 TTTTCACCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (16 bp):
ATAAAAGCTCTTTTTC
Found at i:16851183 original size:15 final size:14
Alignment explanation
Indices: 16851158--16851195 Score: 67
Period size: 15 Copynumber: 2.6 Consensus size: 14
16851148 CAACAAAGAA
16851158 CTTTCTTGTCCATG
1 CTTTCTTGTCCATG
16851172 CTTTCGTTGTCCATG
1 CTTTC-TTGTCCATG
16851187 CTTTCTTGT
1 CTTTCTTGT
16851196 TAGGTTCACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.05, C:0.26, G:0.16, T:0.53
Consensus pattern (14 bp):
CTTTCTTGTCCATG
Found at i:16854419 original size:19 final size:18
Alignment explanation
Indices: 16854395--16854497 Score: 75
Period size: 19 Copynumber: 5.3 Consensus size: 18
16854385 CATCACTCAA
16854395 AAATAATAAGTAATCATGC
1 AAATAATAA-TAATCATGC
16854414 AAATAATAAATAAAATCA--C
1 AAATAAT-AAT--AATCATGC
* *
16854433 AATTAAATATATAATCAGGC
1 AAAT-AATA-ATAATCATGC
* *
16854453 AATTAAATATATGATCATGC
1 AAAT-AATA-ATAATCATGC
16854473 AAATAATAATTAATCATGC
1 AAATAATAA-TAATCATGC
16854492 AAATAA
1 AAATAA
16854498 ATTTTACCAA
Statistics
Matches: 71, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
18 6 0.08
19 31 0.44
20 29 0.41
21 5 0.07
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (18 bp):
AAATAATAATAATCATGC
Found at i:16854446 original size:20 final size:19
Alignment explanation
Indices: 16854427--16854474 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
16854417 TAATAAATAA
16854427 AATCA-CAATTAAATATAT
1 AATCAGCAATTAAATATAT
16854445 AATCAGGCAATTAAATATAT
1 AATCA-GCAATTAAATATAT
*
16854465 GATCATGCAA
1 AATCA-GCAA
16854475 ATAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 5 0.19
20 21 0.81
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.29
Consensus pattern (19 bp):
AATCAGCAATTAAATATAT
Found at i:16854584 original size:18 final size:17
Alignment explanation
Indices: 16854552--16854624 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 17
16854542 ATTCAAACAC
* *
16854552 ATAATTAAAATAATAAA
1 ATAATAAAAAAAATAAA
16854569 ATAATAAAAAAGAATAAA
1 ATAATAAAAAA-AATAAA
* *
16854587 ATTAGAACAAAAAATAAA
1 ATAATAA-AAAAAATAAA
* *
16854605 A-AATAAAAAATAGAAA
1 ATAATAAAAAAAATAAA
16854621 ATAA
1 ATAA
16854625 ATCAAGACAG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
16 9 0.20
17 14 0.31
18 18 0.40
19 4 0.09
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.19
Consensus pattern (17 bp):
ATAATAAAAAAAATAAA
Found at i:16854607 original size:7 final size:7
Alignment explanation
Indices: 16854557--16854625 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
16854547 AACACATAAT
16854557 TAAAATAA
1 TAAAA-AA
16854565 TAAAATAA
1 TAAAA-AA
16854573 TAAAAAA
1 TAAAAAA
*
16854580 GAATAAAA
1 TAA-AAAA
* *
16854588 T-TAGAA
1 TAAAAAA
*
16854594 CAAAAAA
1 TAAAAAA
16854601 TAAAAAA
1 TAAAAAA
16854608 TAAAAAA
1 TAAAAAA
*
16854615 TAGAAAA
1 TAAAAAA
16854622 TAAA
1 TAAA
16854626 TCAAGACAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
6 3 0.06
7 29 0.59
8 17 0.35
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:16854639 original size:39 final size:39
Alignment explanation
Indices: 16854558--16854644 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 39
16854548 ACACATAATT
* *
16854558 AAAATAATAAAATAATAAAAAAGAATAAAATTAGAACAA
1 AAAATAATAAAATAATAAAAAAGAAAAAAATAAGAACAA
*
16854597 AAAATAA-AAAATAA-AAAATAGAAAATAAATCAAG-ACAGA
1 AAAATAATAAAATAATAAAAAAGAAAA-AAAT-AAGAACA-A
16854636 AAAATAATA
1 AAAATAATA
16854645 CAAAAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
37 9 0.22
38 14 0.34
39 17 0.41
40 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (39 bp):
AAAATAATAAAATAATAAAAAAGAAAAAAATAAGAACAA
Found at i:16855146 original size:15 final size:16
Alignment explanation
Indices: 16855112--16855153 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
16855102 CCCAATAGTC
16855112 TAAA-CCAAATCCCCA
1 TAAATCCAAATCCCCA
*
16855127 TAAATCCAAATTCCCA
1 TAAATCCAAATCCCCA
*
16855143 -AAATCAAAATC
1 TAAATCCAAATC
16855154 AAACCAAGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAATCCAAATCCCCA
Found at i:16855657 original size:6 final size:6
Alignment explanation
Indices: 16855646--16855736 Score: 128
Period size: 6 Copynumber: 14.8 Consensus size: 6
16855636 CTAAACCAAA
* * * *
16855646 AAAATT AAAATT AAAATT AAAATT AAAACTA AAAATC AAAATC AAAATC
1 AAAATT AAAATT AAAATT AAAATT AAAA-TT AAAATT AAAATT AAAATT
16855695 AAAATT AAAATT AAAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT -AAAATT AAAATT AAAATT AAAATT AAAAT
16855737 CAACTAAGAC
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
6 69 0.86
7 11 0.14
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.27
Consensus pattern (6 bp):
AAAATT
Found at i:16855736 original size:31 final size:31
Alignment explanation
Indices: 16855645--16855736 Score: 148
Period size: 31 Copynumber: 3.0 Consensus size: 31
16855635 ACTAAACCAA
*
16855645 AAAAATTAAAATTAAAATTAAAATTAAAACT
1 AAAAATTAAAATTAAAATTAAAATTAAAATT
* * *
16855676 AAAAATCAAAATCAAAATCAAAATTAAAATT
1 AAAAATTAAAATTAAAATTAAAATTAAAATT
16855707 AAAAATTAAAATTAAAATTAAAATTAAAAT
1 AAAAATTAAAATTAAAATTAAAATTAAAAT
16855737 CAACTAAGAC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.27
Consensus pattern (31 bp):
AAAAATTAAAATTAAAATTAAAATTAAAATT
Done.