Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 60 of 410
Found at i:16246851 original size:81 final size:81
Alignment explanation
Indices: 16246716--16246868 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
16246706 CAATTTACAG
* **
16246716 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
16246781 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
16246797 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
16246860 AATACCCTT
64 AATACCCTT
16246869 GTGGGGTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:16246852 original size:27 final size:27
Alignment explanation
Indices: 16246822--16246883 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
16246812 CATGGTTTGA
16246822 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
16246849 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
16246876 AAAATTAC
1 AAAATTAC
16246884 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:16246852 original size:54 final size:54
Alignment explanation
Indices: 16246716--16246866 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
16246706 CAATTTACAG
* ** * * *
16246716 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
16246770 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
16246824 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
16246867 TTGTGGGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:16247535 original size:28 final size:28
Alignment explanation
Indices: 16247503--16247561 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
16247493 GCGTAGATCA
16247503 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
16247531 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
16247559 CGA
1 CGA
16247562 TATACCCTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:16250897 original size:36 final size:36
Alignment explanation
Indices: 16250848--16250920 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
16250838 TATATTTGAG
16250848 ATTGTCCAAGGTTAGCTGAAGAGAATCCAGTGCAGA
1 ATTGTCCAAGGTTAGCTGAAGAGAATCCAGTGCAGA
*
16250884 ATTGTCCATGGTTAGCTGAAGAGAATCCAGTGCAGA
1 ATTGTCCAAGGTTAGCTGAAGAGAATCCAGTGCAGA
16250920 A
1 A
16250921 CATGAGATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.23
Consensus pattern (36 bp):
ATTGTCCAAGGTTAGCTGAAGAGAATCCAGTGCAGA
Found at i:16254322 original size:28 final size:28
Alignment explanation
Indices: 16254290--16254357 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
16254280 CGTAGATCAC
*
16254290 GAAATTACCCCTAAAGAGCAAAATTACT
1 GAAATTACCCCTAAAGAGCAAAATTACA
16254318 GAAATTACCCCTAAAGAGCAAAATTACA
1 GAAATTACCCCTAAAGAGCAAAATTACA
*
16254346 GATA-TACCCCTA
1 GAAATTACCCCTA
16254358 GAGTTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.46, C:0.24, G:0.10, T:0.21
Consensus pattern (28 bp):
GAAATTACCCCTAAAGAGCAAAATTACA
Found at i:16257370 original size:19 final size:19
Alignment explanation
Indices: 16257346--16257382 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16257336 GCTAGAAAAG
16257346 ATTCACAATGTATTCTATA
1 ATTCACAATGTATTCTATA
16257365 ATTCACAATGTATTCTAT
1 ATTCACAATGTATTCTAT
16257383 GTTTCGATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.43
Consensus pattern (19 bp):
ATTCACAATGTATTCTATA
Found at i:16258981 original size:41 final size:41
Alignment explanation
Indices: 16258924--16259005 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
16258914 CATATGTCAT
*
16258924 GACATAGAATTCTGATTTATGTGTGCAATTAAGACCATGGC
1 GACATAGAATTCTGATTTATGTGTGCAAGTAAGACCATGGC
*
16258965 GACATAGAATTCTGATTTATGTGTGCGAGTAAGACCATGGC
1 GACATAGAATTCTGATTTATGTGTGCAAGTAAGACCATGGC
16259006 ATCGATATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (41 bp):
GACATAGAATTCTGATTTATGTGTGCAAGTAAGACCATGGC
Found at i:16266674 original size:29 final size:29
Alignment explanation
Indices: 16266641--16266772 Score: 210
Period size: 29 Copynumber: 4.6 Consensus size: 29
16266631 CCTTCGAGCT
** * *
16266641 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
16266670 TGCACACTTAGTGTCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
16266699 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
16266728 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
16266757 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
16266773 ATCTCGTCAC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:16266675 original size:58 final size:58
Alignment explanation
Indices: 16266612--16266772 Score: 178
Period size: 58 Copynumber: 2.8 Consensus size: 58
16266602 AATTTAAGCC
* * * * * *
16266612 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
16266670 TGCACACTTAGTGTCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * **
16266728 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCA
16266773 ATCTCGTCAC
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 89 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:16269268 original size:17 final size:19
Alignment explanation
Indices: 16269229--16269270 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
16269219 TGGGTCACGT
16269229 TGGGCCGAAATGGGCAGTG
1 TGGGCCGAAATGGGCAGTG
*
16269248 TGGGCC-AAATGGGC-TTG
1 TGGGCCGAAATGGGCAGTG
16269265 TGGGCC
1 TGGGCC
16269271 CATGTAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 8 0.36
19 6 0.27
ACGTcount: A:0.17, C:0.19, G:0.45, T:0.19
Consensus pattern (19 bp):
TGGGCCGAAATGGGCAGTG
Found at i:16269739 original size:27 final size:27
Alignment explanation
Indices: 16269697--16269765 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
16269687 CGAAGTACTA
* *
16269697 TACTGGTGGCTCTGCCACAACTATTGT
1 TACTGGTGGCTTTGCCACAACTACTGT
**
16269724 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTTTGCCACAACTACTGT
**
16269751 TACTGGCAGCTTTGC
1 TACTGGTGGCTTTGC
16269766 TGCGATATTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (27 bp):
TACTGGTGGCTTTGCCACAACTACTGT
Found at i:16272353 original size:13 final size:13
Alignment explanation
Indices: 16272331--16272362 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16272321 GCTCGGCAGG
16272331 GACACGCCTGTGT
1 GACACGCCTGTGT
*
16272344 GACACTCCTGTGT
1 GACACGCCTGTGT
16272357 GACACG
1 GACACG
16272363 TCCATGTGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.31, G:0.28, T:0.22
Consensus pattern (13 bp):
GACACGCCTGTGT
Found at i:16273998 original size:42 final size:42
Alignment explanation
Indices: 16273937--16274100 Score: 204
Period size: 42 Copynumber: 3.9 Consensus size: 42
16273927 GGAAATATTT
16273937 GAGATAGCTTCGGCTATACATTGGCACTTAGTGTGCGAGATC
1 GAGATAGCTTCGGCTATACATTGGCACTTAGTGTGCGAGATC
* * * *
16273979 GGGATAGCTTCAGCTATACATTAGCACTTAGTGTGTGAGATC
1 GAGATAGCTTCGGCTATACATTGGCACTTAGTGTGCGAGATC
* * * * *
16274021 AAGATAGCTTCGGCTATGCATTGGCACTTAGTGTACGTGATT
1 GAGATAGCTTCGGCTATACATTGGCACTTAGTGTGCGAGATC
* * *
16274063 GAGTTAGCTTCGGCTACT-TATTGGCACTTAGTGAGCGA
1 GAGATAGCTTCGGCTA-TACATTGGCACTTAGTGTGCGA
16274101 TATTCCCGAG
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 101 0.99
43 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
GAGATAGCTTCGGCTATACATTGGCACTTAGTGTGCGAGATC
Found at i:16274205 original size:32 final size:32
Alignment explanation
Indices: 16274169--16274235 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
16274159 TGAGTATGAG
* * * *
16274169 ATTGGTACGAGATGGTACAGGTATGTACGAAA
1 ATTGGTACAAGATGGTACAAGTATGCACAAAA
*
16274201 ATTGGTACAAGATGGTATAAGTATGCACAAAA
1 ATTGGTACAAGATGGTACAAGTATGCACAAAA
16274233 ATT
1 ATT
16274236 CAATTGAGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (32 bp):
ATTGGTACAAGATGGTACAAGTATGCACAAAA
Found at i:16276289 original size:37 final size:37
Alignment explanation
Indices: 16276239--16276359 Score: 183
Period size: 37 Copynumber: 3.3 Consensus size: 37
16276229 TGTGAGTACG
*
16276239 TGTAAGACCATAGCTGGGCTATGGCATCGTAATAGCA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTGATAGCA
16276276 TGTAAGACCATAGCTGGGCTATGGCATCGTGAT-GACA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTGATAG-CA
* * *
16276313 TGTATGACCATAGCTAGGCTATGGCATTGTGATA-CA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTGATAGCA
16276349 TGTAAGACCAT
1 TGTAAGACCAT
16276360 TTTTGGGACA
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
36 13 0.17
37 64 0.83
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (37 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGTGATAGCA
Found at i:16276408 original size:41 final size:42
Alignment explanation
Indices: 16276349--16276543 Score: 123
Period size: 42 Copynumber: 4.7 Consensus size: 42
16276339 TTGTGATACA
* *
16276349 TGTAAGACCATTTTTGGGACATGGCATCGATATGAGA-TCCG
1 TGTAAGACCATATCTGGGACATGGCATCGATATGAGATTCCG
* * * * *
16276390 TGTAAGACTATATCTGGGATATGGCTTCGGTATGAGATTTCG
1 TGTAAGACCATATCTGGGACATGGCATCGATATGAGATTCCG
* * * * * *
16276432 TGTAAGACCGTGTTTGGG--ATGCAGCATCAATATGTGATTTCG
1 TGTAAGACCATATCTGGGACATG--GCATCGATATGAGATTCCG
* * ** * *
16276474 TATAAAACCATGCCTGGGACATGGCATCGATGTGAGACTT-AG
1 TGTAAGACCATATCTGGGACATGGCATCGATATGAGA-TTCCG
*
16276516 TGTAGGACCATAGT-T-GGACTATGGCATC
1 TGTAAGACCATA-TCTGGGAC-ATGGCATC
16276544 AAGTAAATGA
Statistics
Matches: 117, Mismatches: 29, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
40 3 0.03
41 35 0.30
42 74 0.63
43 2 0.02
44 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACATGGCATCGATATGAGATTCCG
Found at i:16276450 original size:42 final size:41
Alignment explanation
Indices: 16276349--16276451 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 41
16276339 TTGTGATACA
* *
16276349 TGTAAGACCATTTTTGGGACATGGCATCGATATGAGATCCG
1 TGTAAGACCATATTTGGGATATGGCATCGATATGAGATCCG
* * * * *
16276390 TGTAAGACTATATCTGGGATATGGCTTCGGTATGAGATTTCG
1 TGTAAGACCATATTTGGGATATGGCATCGATATGAGA-TCCG
* *
16276432 TGTAAGACCGTGTTTGGGAT
1 TGTAAGACCATATTTGGGAT
16276452 GCAGCATCAA
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
41 31 0.62
42 19 0.38
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAAGACCATATTTGGGATATGGCATCGATATGAGATCCG
Found at i:16280310 original size:13 final size:13
Alignment explanation
Indices: 16280288--16280320 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
16280278 CTAAATTAAT
*
16280288 TTATTGAATGAAA
1 TTATTAAATGAAA
16280301 TTATTAAATGAAA
1 TTATTAAATGAAA
16280314 TTATTAA
1 TTATTAA
16280321 TTTAGATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (13 bp):
TTATTAAATGAAA
Found at i:16280557 original size:42 final size:42
Alignment explanation
Indices: 16280496--16280659 Score: 215
Period size: 42 Copynumber: 3.9 Consensus size: 42
16280486 GGAAATATTT
16280496 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
* *
16280538 GTGATAGCTTCGGCTATGCATTAGCACTTAGTGTGCGAGATC
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
* * * *
16280580 AAGATAGCTTTGGCTATGCATTGACACTTAGTGTGC-ATGATT
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGA-GATC
* * *
16280622 GAGTTAGCTTCGGCTACT-TATTGGCACTTAGTGAGCGA
1 GAGATAGCTTCGGCTA-TGCATTGGCACTTAGTGTGCGA
16280660 TATTCCTGAG
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.01
42 102 0.97
43 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (42 bp):
GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
Found at i:16283081 original size:40 final size:39
Alignment explanation
Indices: 16282913--16283083 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
16282903 AGAAATTGAA
* *
16282913 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
16282953 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
16282993 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
16283033 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
16283073 TGATATCCGGG
1 TGATATCCGGG
16283084 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:16291092 original size:40 final size:39
Alignment explanation
Indices: 16290924--16291094 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
16290914 AGAAATTGAA
* *
16290924 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
16290964 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
16291004 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
16291044 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
16291084 TGATATCCGGG
1 TGATATCCGGG
16291095 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:16294090 original size:28 final size:28
Alignment explanation
Indices: 16294042--16294110 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
16294032 TTTAAAACCC
*
16294042 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
16294069 TAGGGGTAATTTCTGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
16294097 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
16294111 TGATCTACGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:16295944 original size:19 final size:18
Alignment explanation
Indices: 16295907--16295950 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
16295897 ATACATACAG
16295907 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
16295924 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
16295943 TACTAATT
1 TAATAATT
16295951 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:16298231 original size:13 final size:13
Alignment explanation
Indices: 16298213--16298243 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16298203 CGTGTAGGCC
16298213 CACACGGGCAAAA
1 CACACGGGCAAAA
*
16298226 CACACGGGCAAAC
1 CACACGGGCAAAA
16298239 CACAC
1 CACAC
16298244 TGGCTTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.39, G:0.19, T:0.00
Consensus pattern (13 bp):
CACACGGGCAAAA
Found at i:16310321 original size:13 final size:13
Alignment explanation
Indices: 16310303--16310327 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16310293 GGTTTGTTTA
16310303 TTAAACTAATTAT
1 TTAAACTAATTAT
16310316 TTAAACTAATTA
1 TTAAACTAATTA
16310328 ACTAATTTAA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:16312225 original size:6 final size:6
Alignment explanation
Indices: 16312216--16312310 Score: 61
Period size: 6 Copynumber: 15.5 Consensus size: 6
16312206 TATGTCTCTC
* * * * *
16312216 AAAATA AAAAAA ATTAAATG AAAATA AAAATC AAAAGA AAAATA AGAAT-
1 AAAATA AAAATA A--AAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
16312265 AAAATAA AAGAAAA GAAAATA AAAATA AGAAT- -AAATA AAAATA AAA
1 AAAAT-A AA-AATA -AAAATA AAAATA AAAATA AAAATA AAAATA AAA
16312311 TAGGAGGATT
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
4 3 0.04
5 4 0.06
6 46 0.69
7 6 0.09
8 8 0.12
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:16312244 original size:5 final size:5
Alignment explanation
Indices: 16312216--16312312 Score: 72
Period size: 5 Copynumber: 18.2 Consensus size: 5
16312206 TATGTCTCTC
* *
16312216 AAAAT AAAA- AAAAT TAAAT GAAAAT AAAAAT CAAAAGA AAAAT AAGAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT -AAAA-T AAAAT AA-AAT
* *
16312265 AAAAT AAAAG AAAAG AAAAT AAAAAT AAGAAT -AAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT -AAAAT AAAAT
16312312 A
1 A
16312313 GGAGGATTCA
Statistics
Matches: 76, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
4 7 0.09
5 35 0.46
6 34 0.45
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:16312257 original size:18 final size:17
Alignment explanation
Indices: 16312236--16312310 Score: 57
Period size: 16 Copynumber: 4.5 Consensus size: 17
16312226 AAATTAAATG
16312236 AAAATAAAAATCAAAAGA
1 AAAATAAAAAT-AAAAGA
* *
16312254 AAAATAAGAATAAAA-T
1 AAAATAAAAATAAAAGA
* * *
16312270 AAAA-GAAAAGAAAATA
1 AAAATAAAAATAAAAGA
* *
16312286 AAAATAAGAAT-AAATA
1 AAAATAAAAATAAAAGA
16312302 AAAATAAAA
1 AAAATAAAA
16312311 TAGGAGGATT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
15 7 0.16
16 21 0.47
17 7 0.16
18 10 0.22
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (17 bp):
AAAATAAAAATAAAAGA
Found at i:16312297 original size:27 final size:26
Alignment explanation
Indices: 16312243--16312312 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
16312233 ATGAAAATAA
* *
16312243 AAATCAAAAGAAAAATAAGAATAAAAT
1 AAATAAAAAG-AAAATAAAAATAAAAT
16312270 AAA-AGAAAAGAAAATAAAAATAAGAAT
1 AAATA-AAAAGAAAATAAAAATAA-AAT
*
16312297 AAATAAAAATAAAATA
1 AAATAAAAAGAAAATA
16312313 GGAGGATTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 12 0.32
27 24 0.65
28 1 0.03
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.14
Consensus pattern (26 bp):
AAATAAAAAGAAAATAAAAATAAAAT
Found at i:16315278 original size:38 final size:39
Alignment explanation
Indices: 16315220--16315362 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
16315210 GAATGTTCAA
16315220 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
16315259 GTGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
16315297 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
16315336 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
16315363 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:16315310 original size:77 final size:79
Alignment explanation
Indices: 16315221--16315402 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
16315211 AATGTTCAAG
16315221 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCC-GGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
16315284 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
16315298 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
16315363 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
16315377 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
16315403 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 47 0.50
78 6 0.06
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:16320091 original size:30 final size:29
Alignment explanation
Indices: 16319997--16320098 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
16319987 TATAGTGAAT
* * *
16319997 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
16320026 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
16320054 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
16320084 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
16320099 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:16327941 original size:30 final size:29
Alignment explanation
Indices: 16327847--16327948 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
16327837 TATAGTGAAT
* * *
16327847 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
16327876 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
16327904 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
16327934 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
16327949 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:16332416 original size:28 final size:27
Alignment explanation
Indices: 16332377--16332466 Score: 110
Period size: 28 Copynumber: 3.3 Consensus size: 27
16332367 ATAGAGGAAG
16332377 TGTTCTGGTGGCTCTGCCACAAATATC
1 TGTTCTGGTGGCTCTGCCACAAATATC
*
16332404 TGTTTCTGGTGGCTCTGCCACAATTATC
1 TG-TTCTGGTGGCTCTGCCACAAATATC
** * *
16332432 TACATCTGGTGACTCTGTCAC-AATATC
1 T-GTTCTGGTGGCTCTGCCACAAATATC
16332459 TGTTCTGG
1 TGTTCTGG
16332467 AAGCCATGCT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.09
27 8 0.15
28 40 0.75
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
TGTTCTGGTGGCTCTGCCACAAATATC
Found at i:16334738 original size:29 final size:29
Alignment explanation
Indices: 16334704--16334806 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
16334694 TAATCAGCCG
** *
16334704 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
16334733 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
16334762 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
16334791 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
16334807 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:16342812 original size:29 final size:29
Alignment explanation
Indices: 16342778--16342880 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
16342768 TAATCAGCCG
** *
16342778 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
16342807 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
16342836 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
16342865 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
16342881 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:16348905 original size:2 final size:2
Alignment explanation
Indices: 16348898--16348929 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16348888 GACATTGTAC
16348898 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16348930 TCGGCCATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16349471 original size:28 final size:28
Alignment explanation
Indices: 16349402--16349502 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
16349392 GACAAGATTG
* * * *
16349402 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
16349432 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16349460 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
16349489 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
16349503 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:16349496 original size:29 final size:28
Alignment explanation
Indices: 16349431--16349502 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
16349421 AAAATTGTAC
*
16349431 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
16349459 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
16349488 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
16349503 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:16353630 original size:40 final size:40
Alignment explanation
Indices: 16353457--16353628 Score: 170
Period size: 40 Copynumber: 4.3 Consensus size: 40
16353447 GAGTCACGTA
* * *
16353457 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATCACTAGCACAAATG
* * * * * *
16353496 CCTTCGGGTCTTAACCCAGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATCACTAGCACAAATG
* *
16353536 CCTTCGGGTCTTAACCCGGATATAA-CAACTCGCACGAATG
1 CCTTCGGGTCTTAACCCGGATATAATC-ACTAGCACAAATG
* * *
16353576 CCTTCGGGTCTTAGCTCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATCACTAGCACAAATG
*
16353616 CCTTCGGGACTTA
1 CCTTCGGGTCTTA
16353629 GCCAGGGTAT
Statistics
Matches: 109, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.11
40 95 0.87
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATCACTAGCACAAATG
Found at i:16358810 original size:28 final size:27
Alignment explanation
Indices: 16358747--16358816 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
16358737 ATAGTGAGTC
16358747 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
16358774 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
16358802 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16358817 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:16361774 original size:28 final size:27
Alignment explanation
Indices: 16361711--16361780 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
16361701 ATAGTGAGTC
16361711 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
16361738 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
16361766 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16361781 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:16364742 original size:28 final size:27
Alignment explanation
Indices: 16364679--16364748 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
16364669 ATAGTGAGTC
16364679 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
16364706 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
16364734 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16364749 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:16366904 original size:27 final size:26
Alignment explanation
Indices: 16366866--16366925 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
16366856 ATATATATAT
*
16366866 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
16366892 ATATTTGTATCTGGTGACTTAGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
16366919 ATATCTG
1 ATATCTG
16366926 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:16375401 original size:11 final size:11
Alignment explanation
Indices: 16375385--16375409 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16375375 CCAAGAGTCT
16375385 AAATGAGCCAA
1 AAATGAGCCAA
16375396 AAATGAGCCAA
1 AAATGAGCCAA
16375407 AAA
1 AAA
16375410 GGGACAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.16, G:0.16, T:0.08
Consensus pattern (11 bp):
AAATGAGCCAA
Found at i:16381123 original size:43 final size:43
Alignment explanation
Indices: 16381040--16381124 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
16381030 AAAGCTCGTA
*
16381040 CAATGCCAATGTCCCAGACGTCGTCTTACATGTAAACAAATAT
1 CAATGCCAATGTCCCAGACGTCGTCTTACACGTAAACAAATAT
* * *
16381083 CAATGCCATTTTCCCAGACAG-GGTCTTACACG-AAATCAAATA
1 CAATGCCAATGTCCCAGAC-GTCGTCTTACACGTAAA-CAAATA
16381125 CGATATCGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.08
43 32 0.89
44 1 0.03
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACGTCGTCTTACACGTAAACAAATAT
Found at i:16388111 original size:24 final size:26
Alignment explanation
Indices: 16388084--16388136 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
16388074 TCATTTTTCC
*
16388084 GCTCTTTC-AAGCT-ATGAACAGTAA
1 GCTCTTCCTAAGCTGATGAACAGTAA
* *
16388108 GCTCTTCCTTAGCTGATGAATAGTAA
1 GCTCTTCCTAAGCTGATGAACAGTAA
16388134 GCT
1 GCT
16388137 ATATTGAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.29
25 4 0.17
26 13 0.54
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (26 bp):
GCTCTTCCTAAGCTGATGAACAGTAA
Found at i:16388184 original size:24 final size:23
Alignment explanation
Indices: 16388099--16388232 Score: 92
Period size: 23 Copynumber: 5.6 Consensus size: 23
16388089 TTCAAGCTAT
* *
16388099 GAACAGTAAGCTCTTCCTTAGCTGA
1 GAACAGTAAGCTC-T-ATGAGCTGA
* *
16388124 TGAATAGTAAGCTATATTGAGCT-A
1 -GAACAGTAAGCTCTA-TGAGCTGA
* * *
16388148 AAATAGGAAGCTCTAGTGAGCTGA
1 GAACAGTAAGCTCTA-TGAGCTGA
*
16388172 GAACAGTAAGCTCTTATGAGTTGA
1 GAACAGTAAGCTC-TATGAGCTGA
* *
16388196 -AACGGTAAGCTCCATCGAGCTGA
1 GAACAGTAAGCTCTAT-GAGCTGA
*
16388219 AAACAGTAAGCTCT
1 GAACAGTAAGCTCT
16388233 TAAGAGCTAA
Statistics
Matches: 86, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
22 2 0.02
23 35 0.41
24 30 0.35
25 8 0.09
26 11 0.13
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (23 bp):
GAACAGTAAGCTCTATGAGCTGA
Found at i:16388239 original size:24 final size:24
Alignment explanation
Indices: 16388165--16388240 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
16388155 AAGCTCTAGT
* *
16388165 GAGCTGAGAACAGTAAGCTCTTAT
1 GAGCTGAAAACAGTAAGCTCTTAA
* * * *
16388189 GAGTTG-AAACGGTAAGCTC-CATC
1 GAGCTGAAAACAGTAAGCTCTTA-A
16388212 GAGCTGAAAACAGTAAGCTCTTAA
1 GAGCTGAAAACAGTAAGCTCTTAA
16388236 GAGCT
1 GAGCT
16388241 AATATATCGG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
22 1 0.03
23 16 0.40
24 22 0.55
25 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (24 bp):
GAGCTGAAAACAGTAAGCTCTTAA
Found at i:16390145 original size:40 final size:39
Alignment explanation
Indices: 16389980--16390163 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
16389970 AAATTGAATG
* * *
16389980 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
16390020 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
16390060 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
16390100 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
16390139 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
16390164 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:16390188 original size:80 final size:81
Alignment explanation
Indices: 16390020--16390208 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
16390010 GCTGGAAATT
* * * *
16390020 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
16390085 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
16390101 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
16390164 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
16390180 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
16390209 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:16398252 original size:40 final size:39
Alignment explanation
Indices: 16398087--16398270 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
16398077 AAATTGAATG
* * *
16398087 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
16398127 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
16398167 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
16398207 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
16398246 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
16398271 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:16398295 original size:80 final size:81
Alignment explanation
Indices: 16398127--16398315 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
16398117 GCTGGAAATT
* * * *
16398127 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
16398192 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
16398208 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
16398271 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
16398287 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
16398316 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:16399817 original size:8 final size:9
Alignment explanation
Indices: 16399801--16399852 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 9
16399791 TTATTCCAAG
16399801 TATATCAAT
1 TATATCAAT
16399810 TA-ATCAAT
1 TATATCAAT
16399818 TATATACATACAT
1 TATAT-C--A-AT
16399831 TATATCAAT
1 TATATCAAT
16399840 TA-ATCAAT
1 TATATCAAT
16399848 TATAT
1 TATAT
16399853 ACATACATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
8 16 0.43
9 10 0.27
10 2 0.05
12 2 0.05
13 7 0.19
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (9 bp):
TATATCAAT
Found at i:16399837 original size:30 final size:30
Alignment explanation
Indices: 16399801--16399861 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
16399791 TTATTCCAAG
16399801 TATATCAATTAATCAATTATATACATACAT
1 TATATCAATTAATCAATTATATACATACAT
16399831 TATATCAATTAATCAATTATATACATACAT
1 TATATCAATTAATCAATTATATACATACAT
16399861 T
1 T
16399862 TCAAATAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (30 bp):
TATATCAATTAATCAATTATATACATACAT
Found at i:16402965 original size:27 final size:26
Alignment explanation
Indices: 16402917--16402976 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
16402907 GCGAGGCTGG
*
16402917 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
16402944 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
16402970 CAGATAT
1 CAGATAT
16402977 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:16402980 original size:2 final size:2
Alignment explanation
Indices: 16402973--16403008 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
16402963 ACCAGAACAG
16402973 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16403009 GTGGCGAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16403709 original size:26 final size:27
Alignment explanation
Indices: 16403680--16403733 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
16403670 TCACACAAGT
*
16403680 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
16403706 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
16403733 T
1 T
16403734 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:16403765 original size:27 final size:27
Alignment explanation
Indices: 16403734--16403875 Score: 194
Period size: 27 Copynumber: 5.3 Consensus size: 27
16403724 GGGGCAAAAT
* * **
16403734 GGTAATTTTACCCCACAAGGGTATCAC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16403761 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16403788 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16403815 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16403842 GGTAATACTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
16403869 GGTAATT
1 GGTAATT
16403876 TTACAACTTA
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:16403866 original size:54 final size:54
Alignment explanation
Indices: 16403748--16403875 Score: 220
Period size: 54 Copynumber: 2.4 Consensus size: 54
16403738 ATTTTACCCC
** * *
16403748 ACAAGGGTATCACAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATACTACCTT
16403802 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATACTACCTT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATACTACCTT
16403856 ACAAGGGTATTTCGGTAATT
1 ACAAGGGTATTTCGGTAATT
16403876 TTACAACTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (54 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATACTACCTT
Found at i:16409328 original size:27 final size:26
Alignment explanation
Indices: 16409280--16409339 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
16409270 GCGAGGCTGG
*
16409280 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
16409307 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
16409333 CAGATAT
1 CAGATAT
16409340 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:16409748 original size:18 final size:18
Alignment explanation
Indices: 16409725--16409759 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16409715 CGTTTTTGGC
*
16409725 CCATTAAGCCCAAAAATA
1 CCATTAAGCACAAAAATA
*
16409743 CCATTATGCACAAAAAT
1 CCATTAAGCACAAAAAT
16409760 GCACACTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.26, G:0.06, T:0.20
Consensus pattern (18 bp):
CCATTAAGCACAAAAATA
Found at i:16410112 original size:27 final size:27
Alignment explanation
Indices: 16410082--16410227 Score: 157
Period size: 27 Copynumber: 5.4 Consensus size: 27
16410072 GGGGCAAAAT
* * *
16410082 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16410109 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16410136 GGTAATTCTACCTTACAATGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
16410163 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * **
16410190 AGTAATTTTACTTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16410217 AGTAATTCTAC
1 GGTAATTCTAC
16410228 AACTTATCCA
Statistics
Matches: 97, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:16410140 original size:54 final size:54
Alignment explanation
Indices: 16410081--16410227 Score: 195
Period size: 54 Copynumber: 2.7 Consensus size: 54
16410071 AGGGGCAAAA
** *
16410081 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTTTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * * *
16410135 TGGTAATTCTACCTTACAATGGTATTTCGATAATTCTATCCTACAGGGGTATTT
1 TGGTAATTTTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
** * *
16410189 CAGTAATTTTACTTTACAAGGGTATTTCAGTAATTCTAC
1 TGGTAATTTTACCTTACAAGGGTATTTCGGTAATTCTAC
16410228 AACTTATCCA
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (54 bp):
TGGTAATTTTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
Found at i:16413977 original size:39 final size:39
Alignment explanation
Indices: 16413896--16414058 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
16413886 TATGGTAACC
* *
16413896 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
16413936 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
16413975 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
16414014 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
16414053 CGCACA
1 CGCACA
16414059 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:16417115 original size:27 final size:27
Alignment explanation
Indices: 16417084--16417212 Score: 100
Period size: 27 Copynumber: 4.9 Consensus size: 27
16417074 CACATCGTAA
*
16417084 GGTAACTCAGTCATTTTACCTTACAGG
1 GGTAACTCAGTCATTTTACCCTACAGG
** * * *
16417111 GGTAAAACAGTCATTTTAACTTACAAG
1 GGTAACTCAGTCATTTTACCCTACAGG
* * *
16417138 GGTAACACAATCATTTTACCCT--ATG
1 GGTAACTCAGTCATTTTACCCTACAGG
** * **
16417163 GGTATTTCGGTCATTTTACCCTATGGG
1 GGTAACTCAGTCATTTTACCCTACAGG
**
16417190 GGTATTTCAGTCATTTTACCCTA
1 GGTAACTCAGTCATTTTACCCTA
16417213 TGGGGGTATT
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
25 19 0.23
27 64 0.77
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAACTCAGTCATTTTACCCTACAGG
Found at i:16417213 original size:27 final size:27
Alignment explanation
Indices: 16417148--16417229 Score: 141
Period size: 27 Copynumber: 3.1 Consensus size: 27
16417138 GGTAACACAA
*
16417148 TCATTTTACCCTAT--GGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCAG
16417173 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
16417200 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
16417227 TCA
1 TCA
16417230 CCATTTCGAC
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
25 14 0.26
27 40 0.74
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCAG
Found at i:16417696 original size:49 final size:49
Alignment explanation
Indices: 16417624--16417722 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
16417614 ACTTGCATTT
*
16417624 CACCCAAACCTATCAGCCTTAATCATATTACTCGCACACATGAATTGAA
1 CACCCAAACCTATCAACCTTAATCATATTACTCGCACACATGAATTGAA
16417673 CACCCAAACCTATCAACCTTAATCATATTACTCGCACACATGAATTGAA
1 CACCCAAACCTATCAACCTTAATCATATTACTCGCACACATGAATTGAA
16417722 C
1 C
16417723 CAAGCATAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.31, G:0.07, T:0.24
Consensus pattern (49 bp):
CACCCAAACCTATCAACCTTAATCATATTACTCGCACACATGAATTGAA
Found at i:16421061 original size:13 final size:13
Alignment explanation
Indices: 16421043--16421068 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16421033 ATGGTAAAAA
16421043 GAAATGCTTAAGT
1 GAAATGCTTAAGT
16421056 GAAATGCTTAAGT
1 GAAATGCTTAAGT
16421069 TAGGTCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
GAAATGCTTAAGT
Found at i:16421607 original size:29 final size:29
Alignment explanation
Indices: 16421565--16421775 Score: 266
Period size: 29 Copynumber: 7.2 Consensus size: 29
16421555 GTATCGACGC
* *
16421565 CCATCGAATATGAAAAGGTATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGCTTCGA
* *
16421594 CCATCAAATTTGAAAAGGGATGGCTTCGA
1 CCATCGAATATGAAAAGGGATGGCTTCGA
*
16421623 CCATCAAATATGAAAAGGGATGGCTTCGA
1 CCATCGAATATGAAAAGGGATGGCTTCGA
* *
16421652 CCATC-AATTAAAGAAAATGGATGG-TTACGA
1 CCATCGAA-T-ATGAAAAGGGATGGCTT-CGA
* *
16421682 CCATCGAATATGAAAAGGGATGG-TGACAA
1 CCATCGAATATGAAAAGGGATGGCT-TCGA
*
16421711 CCATCGAATATGAAAAGGGATGGCTTCAA
1 CCATCGAATATGAAAAGGGATGGCTTCGA
*
16421740 CCATCGAATACGAAAAGGGATGGCTTCGA
1 CCATCGAATATGAAAAGGGATGGCTTCGA
16421769 CCATCGA
1 CCATCGA
16421776 TTAAAGAAAA
Statistics
Matches: 162, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
28 2 0.01
29 136 0.84
30 22 0.14
31 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGCTTCGA
Found at i:16421725 original size:88 final size:85
Alignment explanation
Indices: 16421565--16421775 Score: 255
Period size: 88 Copynumber: 2.4 Consensus size: 85
16421555 GTATCGACGC
* * * * *
16421565 CCATCGAATATGAAAAGGTATGGTTTCGACCATCAAATTTGAAAAGGGATGGCTTCGACCATCAA
1 CCATCGAATAAGAAAAGG-ATGG-TTCGACCATCGAATATGAAAAGGGATGGCTACAACCATCAA
*
16421630 ATATGAAAAGGGATGGCTTCGA
64 ATATGAAAAGGGATGGCTTCAA
16421652 CCATC-AATTAAAGAAAATGGATGGTTACGACCATCGAATATGAAAAGGGATGG-TGACAACCAT
1 CCATCGAA-T-AAGAAAA-GGATGGTT-CGACCATCGAATATGAAAAGGGATGGCT-ACAACCAT
*
16421715 CGAATATGAAAAGGGATGGCTTCAA
61 CAAATATGAAAAGGGATGGCTTCAA
*
16421740 CCATCGAATACGAAAAGGGATGGCTTCGACCATCGA
1 CCATCGAATAAGAAAA-GGATGG-TTCGACCATCGA
16421776 TTAAAGAAAA
Statistics
Matches: 108, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
86 2 0.02
87 31 0.29
88 71 0.66
89 4 0.04
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (85 bp):
CCATCGAATAAGAAAAGGATGGTTCGACCATCGAATATGAAAAGGGATGGCTACAACCATCAAAT
ATGAAAAGGGATGGCTTCAA
Found at i:16421771 original size:117 final size:117
Alignment explanation
Indices: 16421565--16421800 Score: 364
Period size: 117 Copynumber: 2.0 Consensus size: 117
16421555 GTATCGACGC
* ** * * *
16421565 CCATCGAATATGAAAAGGTATGGTTTCGACCATCAAATTTGAAAAGGGATGGCTTCGACCATCAA
1 CCATCGAATATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGGGATGGCTTCAACCATCAA
*
16421630 ATATGAAAAGGGATGGCTTCGACCATCAATTAAAGAAAATGGATGGTTACGA
66 ATACGAAAAGGGATGGCTTCGACCATCAATTAAAGAAAATGGATGGTTACGA
* *
16421682 CCATCGAATATGAAAAGGGATGGTGACAACCATCGAATATGAAAAGGGATGGCTTCAACCATCGA
1 CCATCGAATATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGGGATGGCTTCAACCATCAA
* * *
16421747 ATACGAAAAGGGATGGCTTCGACCATCGATTAAAGAAAATGGGTGGTTTCGA
66 ATACGAAAAGGGATGGCTTCGACCATCAATTAAAGAAAATGGATGGTTACGA
16421799 CC
1 CC
16421801 TTTATTTAGC
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
117 107 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (117 bp):
CCATCGAATATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGGGATGGCTTCAACCATCAA
ATACGAAAAGGGATGGCTTCGACCATCAATTAAAGAAAATGGATGGTTACGA
Found at i:16427490 original size:20 final size:20
Alignment explanation
Indices: 16427467--16427505 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16427457 TAGAGACATA
*
16427467 AAAGTATAAACAGAGGCACT
1 AAAGTACAAACAGAGGCACT
* *
16427487 AAAGTGCAAGCAGAGGCAC
1 AAAGTACAAACAGAGGCAC
16427506 AGAAGTCCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.26, T:0.10
Consensus pattern (20 bp):
AAAGTACAAACAGAGGCACT
Found at i:16453651 original size:24 final size:24
Alignment explanation
Indices: 16453594--16453652 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
16453584 TTTGATTCGG
*
16453594 GAAAGAAAAAATAATTTTACCAAT
1 GAAAGAAAAAATAATTTTACAAAT
* *
16453618 GAAAGCAAAAATAATTTTAGAAAT
1 GAAAGAAAAAATAATTTTACAAAT
*
16453642 -AAAGAGAAAAT
1 GAAAGAAAAAAT
16453653 TTGATAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 9 0.30
24 21 0.70
ACGTcount: A:0.61, C:0.05, G:0.12, T:0.22
Consensus pattern (24 bp):
GAAAGAAAAAATAATTTTACAAAT
Found at i:16461263 original size:41 final size:40
Alignment explanation
Indices: 16461205--16461385 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
16461195 TCACGAACAA
* * * * * *
16461205 TAAGTGCCAATACATAGCTGAAGCTCTTTTAATCTCGCACAT
1 TAAGTGCC-ATACATAGCCGAAGCTATCTCAA-ATCGCACAC
* * * **
16461247 TAAGTGCCTTACATAGCTGATGCTATCTCGATTTCGCACAC
1 TAAGTGCCATACATAGCCGAAGCTATCTC-AAATCGCACAC
* *
16461288 TGAGTGCCATATATAGCCGAAGCTAT-TCCAAATCGCACAC
1 TAAGTGCCATACATAGCCGAAGCTATCT-CAAATCGCACAC
16461328 TAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACAC
1 TAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACAC
16461368 TAAGTGCCATACATAGCC
1 TAAGTGCCATACATAGCC
16461386 AAATTGTCGT
Statistics
Matches: 119, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
40 64 0.54
41 46 0.39
42 9 0.08
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (40 bp):
TAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACAC
Found at i:16488160 original size:47 final size:46
Alignment explanation
Indices: 16488050--16488170 Score: 131
Period size: 47 Copynumber: 2.6 Consensus size: 46
16488040 ATATTTGTGG
*
16488050 GCTAGTGTAAGACATGTCTGGGACAT-GTATATGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATATG-CACATTATGAGA
* * * *
16488096 GCCAATGTAAAACCATGTCTGGGACATGGCAT-TG-GCATTGAAATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATATGCACATT---ATGAGA
16488144 GCTAGTGTAAGACATGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
16488171 CATCAGCCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
45 4 0.06
46 9 0.15
47 31 0.50
48 18 0.29
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATATGCACATTATGAGA
Found at i:16488207 original size:46 final size:46
Alignment explanation
Indices: 16488053--16488220 Score: 146
Period size: 46 Copynumber: 3.6 Consensus size: 46
16488043 TTTGTGGGCT
* * *
16488053 AGTGTAAGACATGTCTGGGACATGTAT-ATGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCA-GCCTCTA-AATGAGAGCC
* * ** * *
16488099 AATGTAAAACCATGTCTGGGACATGGCATTGGCAT-TGAAATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCT-AAATGAGAGCC
*
16488147 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAAATG-AGAGCC
* *
16488193 AGTGTAAGACATGTCTTGGACATACATC
1 AGTGTAAGACATGTCTGGGACATGCATC
16488221 GGCTACATGA
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
46 47 0.48
47 30 0.31
48 20 0.20
49 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAAATGAGAGCC
Found at i:16489148 original size:46 final size:45
Alignment explanation
Indices: 16489095--16489268 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
16489085 TTTGGGCATT
16489095 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTC
* *** * *
16489141 CGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA-TC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTC
* * *
16489188 CGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTC
*
16489234 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16489269 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTC
Found at i:16489248 original size:93 final size:93
Alignment explanation
Indices: 16489089--16489260 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
16489079 AGGATATTTG
* * *
16489089 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
16489154 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
16489182 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16489247 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
16489261 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:16489399 original size:21 final size:21
Alignment explanation
Indices: 16489374--16489417 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
16489364 CTACTCAAAT
16489374 GGAGGAATACTCGAGATGAAA
1 GGAGGAATACTCGAGATGAAA
16489395 GGAGGAATACTCGAGATGAAA
1 GGAGGAATACTCGAGATGAAA
16489416 GG
1 GG
16489418 GACGTATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.36, T:0.14
Consensus pattern (21 bp):
GGAGGAATACTCGAGATGAAA
Found at i:16491408 original size:29 final size:28
Alignment explanation
Indices: 16491360--16491422 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
16491350 AGCCCTATGT
* *
16491360 TGTCCACACGGGTAGACCCATAGGTGTG
1 TGTCCACACGGCTAGACCCATAGGCGTG
*
16491388 TGTCACACACGGCTAGTCCCATAGGCGTG
1 TGTC-CACACGGCTAGACCCATAGGCGTG
16491417 TTGTCC
1 -TGTCC
16491423 GGCCGTGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 4 0.13
29 22 0.73
30 4 0.13
ACGTcount: A:0.19, C:0.29, G:0.29, T:0.24
Consensus pattern (28 bp):
TGTCCACACGGCTAGACCCATAGGCGTG
Found at i:16496836 original size:91 final size:91
Alignment explanation
Indices: 16496697--16496878 Score: 364
Period size: 91 Copynumber: 2.0 Consensus size: 91
16496687 AATTCTATAA
16496697 CAATGTCAATTTAGTAAAATATGTTTATAAGTAATAATGTATTTCGTCAAAAAAATATAAAAATC
1 CAATGTCAATTTAGTAAAATATGTTTATAAGTAATAATGTATTTCGTCAAAAAAATATAAAAATC
16496762 TTCTTTCAGCCAAATGAATCGAATGG
66 TTCTTTCAGCCAAATGAATCGAATGG
16496788 CAATGTCAATTTAGTAAAATATGTTTATAAGTAATAATGTATTTCGTCAAAAAAATATAAAAATC
1 CAATGTCAATTTAGTAAAATATGTTTATAAGTAATAATGTATTTCGTCAAAAAAATATAAAAATC
16496853 TTCTTTCAGCCAAATGAATCGAATGG
66 TTCTTTCAGCCAAATGAATCGAATGG
16496879 GATAACGTTA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (91 bp):
CAATGTCAATTTAGTAAAATATGTTTATAAGTAATAATGTATTTCGTCAAAAAAATATAAAAATC
TTCTTTCAGCCAAATGAATCGAATGG
Found at i:16504196 original size:39 final size:39
Alignment explanation
Indices: 16504153--16504231 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
16504143 ATAACCTTTA
* * *
16504153 AGAAACCGGGTTATACTTTTTCAATCATTTGATCCCTCT
1 AGAAACCAGGTTATACTTTTACAATCACTTGATCCCTCT
*
16504192 AGAAACCAGGTTATACTTTTACAATCCCTTGATCCCTCT
1 AGAAACCAGGTTATACTTTTACAATCACTTGATCCCTCT
16504231 A
1 A
16504232 CAAAAGTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (39 bp):
AGAAACCAGGTTATACTTTTACAATCACTTGATCCCTCT
Found at i:16505628 original size:29 final size:27
Alignment explanation
Indices: 16505581--16505635 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
16505571 AAATATAATA
* *
16505581 AAAATTAATTATATTAAAATTAAAAAT
1 AAAATTAAATATATTAAAAATAAAAAT
16505608 AAAATATAAATATGATTAAAAATAAAAA
1 AAAAT-TAAATAT-ATTAAAAATAAAAA
16505636 ATATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 6 0.25
29 13 0.54
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAATTAAATATATTAAAAATAAAAAT
Found at i:16505645 original size:25 final size:23
Alignment explanation
Indices: 16505599--16505643 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
16505589 TTATATTAAA
16505599 ATTAAAAATAAAATATAAATATG
1 ATTAAAAATAAAATATAAATATG
* *
16505622 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAATATAAATAT
16505644 ATATATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAAATATAAATATG
Found at i:16507601 original size:7 final size:7
Alignment explanation
Indices: 16507572--16507654 Score: 76
Period size: 7 Copynumber: 11.9 Consensus size: 7
16507562 ATCTTTTCAA
*
16507572 CTCAATA
1 CTCAATC
*
16507579 CTCAATA
1 CTCAATC
16507586 CTCAATC
1 CTCAATC
*
16507593 CTCACTC
1 CTCAATC
16507600 CTCAATC
1 CTCAATC
* *
16507607 TTCTATC
1 CTCAATC
*
16507614 CTCAATT
1 CTCAATC
* **
16507621 TTCGCTC
1 CTCAATC
*
16507628 CTTAATC
1 CTCAATC
16507635 CTCAATC
1 CTCAATC
16507642 CTCAATC
1 CTCAATC
16507649 CTCAAT
1 CTCAAT
16507655 TCCCAGTTCT
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 59 1.00
ACGTcount: A:0.27, C:0.37, G:0.01, T:0.35
Consensus pattern (7 bp):
CTCAATC
Found at i:16507617 original size:28 final size:28
Alignment explanation
Indices: 16507572--16507652 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 28
16507562 ATCTTTTCAA
* *
16507572 CTCAATACTCAATACTCAATCCTCACTC
1 CTCAATCCTCAATCCTCAATCCTCACTC
* * ** *
16507600 CTCAATCTTCTATCCTCAATTTTCGCTC
1 CTCAATCCTCAATCCTCAATCCTCACTC
*
16507628 CTTAATCCTCAATCCTCAATCCTCA
1 CTCAATCCTCAATCCTCAATCCTCA
16507653 ATTCCCAGTT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.26, C:0.38, G:0.01, T:0.35
Consensus pattern (28 bp):
CTCAATCCTCAATCCTCAATCCTCACTC
Found at i:16509713 original size:61 final size:61
Alignment explanation
Indices: 16509643--16509779 Score: 159
Period size: 61 Copynumber: 2.2 Consensus size: 61
16509633 GTTTTTCTAC
* * *
16509643 AAAGACATTCCTTAGCATTCAATACTCGA-CACAAAGGCTTTCATATCCAGAGTTTTGCCCT
1 AAAGACATTCCTTAACATTCAATACTC-ACCACAAAGGCTTTCATATCCAGAGTTTTACCAT
* * * * * * * *
16509704 AAAGGCATTCTTTAACATTTAGTACTCACCACAAATGTTTTCCTGTCCAGAGTTTTACCAT
1 AAAGACATTCCTTAACATTCAATACTCACCACAAAGGCTTTCATATCCAGAGTTTTACCAT
16509765 AAAGACATTCCTTAA
1 AAAGACATTCCTTAA
16509780 TGTTCAGTAT
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
60 1 0.02
61 61 0.98
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (61 bp):
AAAGACATTCCTTAACATTCAATACTCACCACAAAGGCTTTCATATCCAGAGTTTTACCAT
Found at i:16521394 original size:51 final size:51
Alignment explanation
Indices: 16521334--16521432 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
16521324 TTTGATTAGG
*
16521334 TAGATTGGAGTGGTGTTTTAGATCCTTGTAGTTCTTGAGTTTTTTTTTTTT
1 TAGATTGGAGTGGTGTTTTAGATCCTTGTAGTTCTTGAGTTTTATTTTTTT
16521385 TAGATTGGAGTGGTGTTTTAGATCCTTGTAGTTCTTGAGTTTTATTTT
1 TAGATTGGAGTGGTGTTTTAGATCCTTGTAGTTCTTGAGTTTTATTTT
16521433 CTTATTGTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.15, C:0.06, G:0.24, T:0.55
Consensus pattern (51 bp):
TAGATTGGAGTGGTGTTTTAGATCCTTGTAGTTCTTGAGTTTTATTTTTTT
Found at i:16524658 original size:53 final size:54
Alignment explanation
Indices: 16524592--16524703 Score: 156
Period size: 53 Copynumber: 2.1 Consensus size: 54
16524582 TGTTGAATTC
** * * *
16524592 TTATGGAAGAAAATGAATCATGGTTGTTAAA-CAAGA-GAAATGTTTGAGTGGTT
1 TTATGGAAGAAAATGAATCATAATT-TTAAAGAAAAAGGAAATGTTTGAGTGATT
16524645 TTATGGAAGAAAATGAATCATAATTTTAAAGAAAAAGGAAATGTTTGAGTGATT
1 TTATGGAAGAAAATGAATCATAATTTTAAAGAAAAAGGAAATGTTTGAGTGATT
16524699 TTATG
1 TTATG
16524704 AAAAATTTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
52 5 0.10
53 26 0.50
54 21 0.40
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (54 bp):
TTATGGAAGAAAATGAATCATAATTTTAAAGAAAAAGGAAATGTTTGAGTGATT
Found at i:16525457 original size:53 final size:54
Alignment explanation
Indices: 16525391--16525504 Score: 169
Period size: 53 Copynumber: 2.1 Consensus size: 54
16525381 TTGCTAAATA
* * * *
16525391 TTTATGGAAGAAAATGAATCATGGTTGTT-AA-ACAGGGGAAATGTTTGAGTGGT
1 TTTATGGAAGAAAATGAATCATAGTT-TTAAAGACAAGAGAAATGTTTAAGTGGT
16525444 TTTATGGAAGAAAATGAATCATAGTTTTAAAGACAAGAGAAATGTTTAAGTGGT
1 TTTATGGAAGAAAATGAATCATAGTTTTAAAGACAAGAGAAATGTTTAAGTGGT
16525498 TTTATGG
1 TTTATGG
16525505 CAAATTACCC
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
52 2 0.04
53 27 0.49
54 26 0.47
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (54 bp):
TTTATGGAAGAAAATGAATCATAGTTTTAAAGACAAGAGAAATGTTTAAGTGGT
Found at i:16528452 original size:40 final size:40
Alignment explanation
Indices: 16528379--16528586 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
16528369 CAATTGAATG
* * ** *
16528379 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
16528419 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
16528459 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
16528499 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
16528539 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
16528579 ATATCCGG
1 ATATCCGG
16528587 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:16528517 original size:80 final size:80
Alignment explanation
Indices: 16528381--16528586 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
16528371 ATTGAATGAT
* * ** * * * *
16528381 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
16528445 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
16528461 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
16528526 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
16528541 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
16528587 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:16533875 original size:40 final size:40
Alignment explanation
Indices: 16533830--16533996 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
16533820 CGGAATATAA
16533830 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
16533870 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
16533910 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
16533950 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
16533989 CCGGATAT
1 CCGGATAT
16533997 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:16533980 original size:80 final size:79
Alignment explanation
Indices: 16533846--16533996 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
16533836 ATAATCACGT
*
16533846 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
16533911 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
16533926 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
16533989 CCGGATAT
64 CCGGATAT
16533997 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:16539699 original size:40 final size:40
Alignment explanation
Indices: 16539626--16539833 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
16539616 CAATTGAATG
* * ** *
16539626 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
16539666 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
16539706 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
16539746 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
16539786 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
16539826 ATATCCGG
1 ATATCCGG
16539834 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:16539764 original size:80 final size:80
Alignment explanation
Indices: 16539628--16539833 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
16539618 ATTGAATGAT
* * ** * * * *
16539628 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
16539692 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
16539708 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
16539773 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
16539788 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
16539834 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:16542492 original size:21 final size:21
Alignment explanation
Indices: 16542457--16542525 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
16542447 ACGCATCGAA
*
16542457 TCCTCTGGCTCCCAAGTAGCC
1 TCCTCCGGCTCCCAAGTAGCC
* *
16542478 TACTCCGGCTACCAAGTAGCC
1 TCCTCCGGCTCCCAAGTAGCC
*
16542499 TCCTCCGACTCCCAAGTAGCC
1 TCCTCCGGCTCCCAAGTAGCC
16542520 TCCTCC
1 TCCTCC
16542526 ATGCTATGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.17, C:0.45, G:0.16, T:0.22
Consensus pattern (21 bp):
TCCTCCGGCTCCCAAGTAGCC
Found at i:16544205 original size:25 final size:25
Alignment explanation
Indices: 16544130--16544197 Score: 91
Period size: 26 Copynumber: 2.7 Consensus size: 25
16544120 GCCAACACAG
16544130 CAGTATCGCAGCAAAGCTGCCAGTAA
1 CAGTATCGCAGCAAAGCTGCCAGT-A
* * *
16544156 TAATATCGCAGCAAGGCTGCCAGTA
1 CAGTATCGCAGCAAAGCTGCCAGTA
*
16544181 CAGTAACGCAGCAAAGC
1 CAGTATCGCAGCAAAGC
16544198 CGCTAGTATC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
25 14 0.40
26 21 0.60
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (25 bp):
CAGTATCGCAGCAAAGCTGCCAGTA
Found at i:16544387 original size:27 final size:27
Alignment explanation
Indices: 16544342--16544396 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
16544332 TACCAAAGCA
16544342 AAAATCAGTCATTTACCCTCA-AGGGGT
1 AAAATCAGTCATTTACCCT-ATAGGGGT
*
16544369 AAAAT-AGTCATTTTGCCCTATAGGGGT
1 AAAATCAGTCA-TTTACCCTATAGGGGT
16544396 A
1 A
16544397 TTTTGGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (27 bp):
AAAATCAGTCATTTACCCTATAGGGGT
Found at i:16550346 original size:26 final size:26
Alignment explanation
Indices: 16550316--16550423 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
16550306 TAAAATGCCC
16550316 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16550342 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
16550368 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
16550394 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16550420 ATCA
1 ATCA
16550424 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16553247 original size:25 final size:26
Alignment explanation
Indices: 16553182--16553260 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 26
16553172 ACACACCAGT
*
16553182 ATCGCAGCAAAGCTGCCAGTAATAAT-
1 ATCGCAGCAAAGCTGCCAGT-ATAGTA
* *
16553208 ATCGCAGTAAGGCTGCCAGTATAGTA
1 ATCGCAGCAAAGCTGCCAGTATAGTA
16553234 AT-GCAGCAAAGCTGCCAGTATCAGTA
1 ATCGCAGCAAAGCTGCCAGTAT-AGTA
16553260 A
1 A
16553261 ATGTGGCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
25 21 0.46
26 25 0.54
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGTATAGTA
Found at i:16558324 original size:66 final size:66
Alignment explanation
Indices: 16558209--16558340 Score: 210
Period size: 66 Copynumber: 2.0 Consensus size: 66
16558199 TCCCTAAGTA
* *
16558209 AGATTAAGGAACTCCCGCCTCCGAGTGTCAATATAACTAGCCCCCACATACTTACTCTAGAAAGC
1 AGATTAAGGAACTCCCGCCTCCGAGCGTCAATATAACTAACCCCCACATACTTACTCTAGAAAGC
16558274 C
66 C
*** *
16558275 AGATTAAGGAACTCCCGCCTCCGAGCGTCAATATAACTAACCTTTACATACTTACTCTGGAAAGC
1 AGATTAAGGAACTCCCGCCTCCGAGCGTCAATATAACTAACCCCCACATACTTACTCTAGAAAGC
16558340 C
66 C
16558341 GTCTTAAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (66 bp):
AGATTAAGGAACTCCCGCCTCCGAGCGTCAATATAACTAACCCCCACATACTTACTCTAGAAAGC
C
Found at i:16570218 original size:13 final size:13
Alignment explanation
Indices: 16570200--16570226 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16570190 GTTCAGCAGG
16570200 GACACGCCCGTGT
1 GACACGCCCGTGT
16570213 GACACGCCCGTGT
1 GACACGCCCGTGT
16570226 G
1 G
16570227 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:16572320 original size:48 final size:48
Alignment explanation
Indices: 16572249--16572482 Score: 238
Period size: 48 Copynumber: 4.9 Consensus size: 48
16572239 TTTGGGTGAT
* * *
16572249 ATGAGTGCCAGTGTAAGACCATGTCTGGGACATCGCATCGACCACAAC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGAC
* * * ***
16572297 ATGAGAGCCAGTGTAAGACCATGTCTGGGAAATCGCGTC-AGCCACCTT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCACGAC
* * *
16572345 ATGAGAGCCAGTCG-AAGACCATGTCTGGGACATGGCATCGACAATGAG
1 ATGAGAGCCAGT-GTAAGACCATGTCTGGGACATGGCATCGACCACGAC
* * * * *
16572393 ACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCACCGGCCTCGAC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGAC
* * * * *
16572441 ATGTGAGCTAGTGTAAGACCATGTTTGGAAAATGGCATCGAC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
16572483 AATTCACCAT
Statistics
Matches: 153, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
47 2 0.01
48 149 0.97
49 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.20
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGAC
Found at i:16572412 original size:96 final size:96
Alignment explanation
Indices: 16572248--16572422 Score: 262
Period size: 96 Copynumber: 1.8 Consensus size: 96
16572238 ATTTGGGTGA
* * *
16572248 TATGAGTGCCAGTGTAAGACCATGTCTGGGACATCGCATCGACCACAACATGAGAGCCAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATCGCATCGACAACAACACGAGAGCCAGTGTAA
16572313 GACCATGTCTGGGAAATCGCGTCAGCCACCT
66 GACCATGTCTGGGAAATCGCGTCAGCCACCT
* ** * *
16572344 TATGAGAGCCAGTCG-AAGACCATGTCTGGGACATGGCATCGACAATGAGACGAGAGCTAGTGTA
1 TATGAGAGCCAGT-GTAAGACCATGTCTGGGACATCGCATCGACAACAACACGAGAGCCAGTGTA
16572408 AGACCATGTCTGGGA
65 AGACCATGTCTGGGA
16572423 CATGGCACCG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
96 69 0.99
97 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.19
Consensus pattern (96 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGGACATCGCATCGACAACAACACGAGAGCCAGTGTAA
GACCATGTCTGGGAAATCGCGTCAGCCACCT
Found at i:16579118 original size:80 final size:80
Alignment explanation
Indices: 16578985--16579152 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 80
16578975 TGAATGATAC
* * ** * * *
16578985 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCTGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGACAATT-
*
16579049 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* *
16579065 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAATCCGGGTTAAGACCCGAAGACAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGACCAAATCCGGGCTAAGACCCGAAGACAATT
**
16579129 GTGCTTGTGGTTATAT
65 GTGCGAGTGGTTATAT
16579145 CC-GGCTAA
1 CCGGGCTAA
16579153 ATTCCGAAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
79 6 0.08
80 64 0.86
81 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGACAATTG
TGCGAGTGGTTATAT
Found at i:16579147 original size:40 final size:40
Alignment explanation
Indices: 16578985--16579152 Score: 155
Period size: 40 Copynumber: 4.2 Consensus size: 40
16578975 TGAATGATAC
* * *
16578985 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* *
16579025 CTGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
16579065 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTATAT
* * * *
16579105 CCGGGTTAAGACCCGAAGACAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
16579145 CC-GGCTAA
1 CCGGGCTAA
16579153 ATTCCGAAGA
Statistics
Matches: 101, Mismatches: 22, Indels: 11
0.75 0.16 0.08
Matches are distributed among these distances:
39 8 0.08
40 89 0.88
41 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:16585289 original size:40 final size:41
Alignment explanation
Indices: 16585180--16585347 Score: 168
Period size: 40 Copynumber: 4.2 Consensus size: 41
16585170 TCTTCGGAAT
* * *
16585180 TTAG-CCGGATATAA-CCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
* * ** *
16585219 TTAACTCGGAGT-TGGT-AACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGA-TATAATCAACTAGCACAAATGCCTTCGGGTC
* *
16585259 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
* * *
16585299 TTAGCCCAGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
16585339 TTAGCCCGG
1 TTAGCCCGG
16585348 GTATCATTCA
Statistics
Matches: 103, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
39 4 0.04
40 97 0.94
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
Found at i:16587345 original size:29 final size:28
Alignment explanation
Indices: 16587303--16587405 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
16587293 ATTGCGAGAT
* * * *
16587303 TGGCACTGAGTGTGTGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGGGCTTG-AATATA
* *
16587332 TGGCACTAAGTGTGCGGGTTTGGACTATA
1 TGGCACTAAGTGTGCGGGCTT-GAATATA
* *
16587361 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGGGCTTGAAT-ATA
16587390 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
16587406 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 57 0.93
30 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.34, T:0.30
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGGGCTTGAATATA
Found at i:16590971 original size:21 final size:21
Alignment explanation
Indices: 16590947--16590995 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
16590937 GGAATTAAAG
16590947 GAATTGAAGGTTCAATTGCAA
1 GAATTGAAGGTTCAATTGCAA
16590968 GAATTGAAGGTTCAATTGCAA
1 GAATTGAAGGTTCAATTGCAA
16590989 GAATTGA
1 GAATTGA
16590996 CGGATAGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (21 bp):
GAATTGAAGGTTCAATTGCAA
Found at i:16592702 original size:80 final size:80
Alignment explanation
Indices: 16592618--16592766 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
16592608 TATGGTAACC
* * * *
16592618 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
16592682 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
16592698 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
16592763 CCGG
66 CCGG
16592767 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:16592708 original size:40 final size:38
Alignment explanation
Indices: 16592659--16592766 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
16592649 ATCACGATTT
*
16592659 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
16592699 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
16592739 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
16592767 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:16600188 original size:80 final size:80
Alignment explanation
Indices: 16600104--16600252 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
16600094 TATGGTAACC
* * * *
16600104 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
16600168 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
16600184 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
16600249 CCGG
66 CCGG
16600253 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:16600194 original size:40 final size:38
Alignment explanation
Indices: 16600145--16600252 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
16600135 ATCACGATTT
*
16600145 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
16600185 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
16600225 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
16600253 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:16605317 original size:29 final size:28
Alignment explanation
Indices: 16605285--16605387 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
16605275 GTGACGAGAT
* *
16605285 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
16605314 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
16605343 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
16605372 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
16605388 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:16610445 original size:40 final size:41
Alignment explanation
Indices: 16610390--16610537 Score: 176
Period size: 40 Copynumber: 3.7 Consensus size: 41
16610380 TGAATGATAC
* * *
16610390 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCTGATTATAT
* *
16610430 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCTGATTATAT
** *
16610470 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCTGATTATAT
* * *
16610510 CCGGGTTAAGACCCGAAGACAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
16610538 TTGTGGTTAT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 92 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (41 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCTGATTATAT
Found at i:16610523 original size:80 final size:80
Alignment explanation
Indices: 16610390--16610557 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
16610380 TGAATGATAC
* * ** * *
16610390 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGACAATT-
*
16610454 GTGCAAGTTGTTATAT
65 GTGCAAGTGGTTATAT
* *
16610470 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAATCCGGGTTAAGACCCGAAGACAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGACCAAATCCGGGCTAAGACCCGAAGACAATT
**
16610534 GTGCTTGTGGTTATAT
65 GTGCAAGTGGTTATAT
16610550 CC-GGCTAA
1 CCGGGCTAA
16610558 ATTCTGAAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
79 6 0.08
80 65 0.87
81 4 0.05
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGACAATTG
TGCAAGTGGTTATAT
Found at i:16610552 original size:40 final size:40
Alignment explanation
Indices: 16610390--16610557 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 40
16610380 TGAATGATAC
* * * *
16610390 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
16610430 CCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGATTATAT
* ** *
16610470 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAG-TGATTATAT
* * ** *
16610510 CCGGGTTAAGACCCGAAGACAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
16610550 CC-GGCTAA
1 CCGGGCTAA
16610558 ATTCTGAAGA
Statistics
Matches: 104, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
39 8 0.08
40 92 0.88
41 4 0.04
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
Done.