Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, 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: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 42
Found at i:4631968 original size:31 final size:31
Alignment explanation
Indices: 4631933--4632014 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 31
4631923 CTTTAAAAAA
* *
4631933 TTATAAAATGATCATTAAATTTACTGAAA-TG
1 TTATAAAATAATCATTAAATTTAC-CAAACTG
*
4631964 TTAT-AAATAACCATTAAATTTTACCAAACTG
1 TTATAAAATAATCATTAAA-TTTACCAAACTG
4631995 TTATAAAATAATCATTAAAT
1 TTATAAAATAATCATTAAAT
4632015 CCATCAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
30 15 0.34
31 16 0.36
32 13 0.30
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (31 bp):
TTATAAAATAATCATTAAATTTACCAAACTG
Found at i:4638823 original size:23 final size:23
Alignment explanation
Indices: 4638793--4638837 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
4638783 GCAGAACTGG
4638793 AAGCATAATTCAGTATACAAACC
1 AAGCATAATTCAGTATACAAACC
4638816 AAGCATAATTCAGTATACAAAC
1 AAGCATAATTCAGTATACAAAC
4638838 AGTTTACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.22
Consensus pattern (23 bp):
AAGCATAATTCAGTATACAAACC
Found at i:4645886 original size:2 final size:2
Alignment explanation
Indices: 4645879--4645918 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4645869 TCAAGTTTAA
4645879 AT AT 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 AT AT
4645919 TGAAGTAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4647586 original size:21 final size:20
Alignment explanation
Indices: 4647545--4647583 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4647535 TGTTTTCTGT
*
4647545 ATGTTTTATGTGTTGATTTG
1 ATGTTTTATGTGGTGATTTG
4647565 ATGTTTT-TGTAGGTGATTT
1 ATGTTTTATGT-GGTGATTT
4647584 TGACAAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (20 bp):
ATGTTTTATGTGGTGATTTG
Found at i:4652014 original size:20 final size:21
Alignment explanation
Indices: 4651991--4652041 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
4651981 AAAAGGTTTT
*
4651991 TTATTTTTAAAATTTTAA-TA
1 TTATTTTTAAAATTTTAAGAA
* *
4652011 TTATCTTT-ATATTTTAAGAA
1 TTATTTTTAAAATTTTAAGAA
*
4652031 TTTTTTTTAAA
1 TTATTTTTAAA
4652042 TTATAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
19 8 0.35
20 14 0.61
21 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTATTTTTAAAATTTTAAGAA
Found at i:4666872 original size:18 final size:17
Alignment explanation
Indices: 4666828--4666874 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
4666818 TCTTTTGAAA
4666828 TTAATAA-TTTAACATT
1 TTAATAATTTTAACATT
* * *
4666844 TCAATATTTTTAATATTT
1 TTAATAATTTTAACA-TT
4666862 TTAATAATTTTAA
1 TTAATAATTTTAA
4666875 AATGTTTCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 5 0.21
17 6 0.25
18 13 0.54
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATAATTTTAACATT
Found at i:4667895 original size:13 final size:13
Alignment explanation
Indices: 4667885--4667953 Score: 64
Period size: 9 Copynumber: 5.8 Consensus size: 13
4667875 TACATATTAT
4667885 ATAAAATTATTTA
1 ATAAAATTATTTA
4667898 AT-AAA--A-TTA
1 ATAAAATTATTTA
4667907 ATAAAATTATTTA
1 ATAAAATTATTTA
4667920 AT-AAA--A-TTA
1 ATAAAATTATTTA
4667929 ATAAAATTATTTAA
1 ATAAAATTATTT-A
4667943 ATATAAATTAT
1 ATA-AAATTAT
4667954 ATAAAACATG
Statistics
Matches: 46, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
9 10 0.22
10 8 0.17
12 8 0.17
13 9 0.20
14 4 0.09
15 7 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:4667913 original size:22 final size:23
Alignment explanation
Indices: 4667880--4667959 Score: 128
Period size: 22 Copynumber: 3.5 Consensus size: 23
4667870 ATATATACAT
4667880 ATTATATAAAATTATTTAATAAA
1 ATTATATAAAATTATTTAATAAA
4667903 ATTA-ATAAAATTATTTAATAAA
1 ATTATATAAAATTATTTAATAAA
4667925 ATTA-ATAAAATTATTTAAATATAA
1 ATTATATAAAATTATTT-AATA-AA
4667949 ATTATATAAAA
1 ATTATATAAAA
4667960 CATGATTAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
22 34 0.63
23 8 0.15
24 6 0.11
25 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTATATAAAATTATTTAATAAA
Found at i:4668273 original size:7 final size:7
Alignment explanation
Indices: 4668252--4668309 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
4668242 TCCATTTATA
4668252 TTAGGGT
1 TTAGGGT
**
4668259 TTATTGT
1 TTAGGGT
*
4668266 TTAGTGT
1 TTAGGGT
*
4668273 TTATGGT
1 TTAGGGT
**
4668280 TTAAAGT
1 TTAGGGT
4668287 TTAGGGT
1 TTAGGGT
4668294 TTAGGGT
1 TTAGGGT
4668301 TTAGGGT
1 TTAGGGT
4668308 TT
1 TT
4668310 CTATAAACTA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (7 bp):
TTAGGGT
Found at i:4668392 original size:13 final size:12
Alignment explanation
Indices: 4668374--4668420 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
4668364 TAATATACTT
4668374 TATATAGTT-TA
1 TATATAGTTATA
4668385 TATATA--TATA
1 TATATAGTTATA
4668395 TATATATGTTATA
1 TATATA-GTTATA
4668408 TATATAGTT-TA
1 TATATAGTTATA
4668419 TA
1 TA
4668421 AATACTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 1 0.03
10 8 0.25
11 10 0.31
12 3 0.09
13 10 0.31
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TATATAGTTATA
Found at i:4668400 original size:21 final size:21
Alignment explanation
Indices: 4668374--4668413 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4668364 TAATATACTT
4668374 TATATA-GTTTATATATATATA
1 TATATATG-TTATATATATATA
4668395 TATATATGTTATATATATA
1 TATATATGTTATATATATA
4668414 GTTTATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TATATATGTTATATATATATA
Found at i:4668474 original size:23 final size:25
Alignment explanation
Indices: 4668448--4668509 Score: 85
Period size: 22 Copynumber: 2.6 Consensus size: 25
4668438 ATACATTCAT
4668448 ATTATATAAAATTATTT-AAT-AAA
1 ATTATATAAAATTATTTAAATGAAA
*
4668471 ATTA-ATAAAATTATTTAAATGTAA
1 ATTATATAAAATTATTTAAATGAAA
4668495 ATTATATAAACATTA
1 ATTATATAAA-ATTA
4668510 ATTAGGTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
22 12 0.35
23 7 0.21
24 6 0.18
25 5 0.15
26 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTATATAAAATTATTTAAATGAAA
Found at i:4668813 original size:14 final size:14
Alignment explanation
Indices: 4668794--4668851 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
4668784 TTTATTTACA
4668794 TTAGGGTTTAGAGT
1 TTAGGGTTTAGAGT
4668808 TTAGGGTTTAGTA-T
1 TTAGGGTTTAG-AGT
* * * *
4668822 TCAAGTTTTAGTGT
1 TTAGGGTTTAGAGT
4668836 TTAGGGTTTAGAGT
1 TTAGGGTTTAGAGT
4668850 TT
1 TT
4668852 CTATACACTA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
14 33 0.97
15 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (14 bp):
TTAGGGTTTAGAGT
Found at i:4668908 original size:21 final size:21
Alignment explanation
Indices: 4668884--4668956 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
4668874 ATTTATGTAG
4668884 TTTAGTGTTTAAGGTTTAAGA
1 TTTAGTGTTTAAGGTTTAAGA
*
4668905 TTTAAGT-TTT-AGTGTTTATGA
1 TTT-AGTGTTTAAG-GTTTAAGA
* * *
4668926 TTTAGGGTTTAGGGTTCAAGA
1 TTTAGTGTTTAAGGTTTAAGA
*
4668947 TTTAGAGTTT
1 TTTAGTGTTT
4668957 TCATAAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 4 0.10
21 34 0.81
22 4 0.10
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (21 bp):
TTTAGTGTTTAAGGTTTAAGA
Found at i:4669015 original size:2 final size:2
Alignment explanation
Indices: 4669008--4669142 Score: 65
Period size: 2 Copynumber: 69.5 Consensus size: 2
4668998 TTCTATAAAC
* * *
4669008 TA TA TA TA TA TA TA TC TA TA TA TA -A TC TA TA -A AA TA CT- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* *
4669048 TA T- TA GT- TA TA CA TA CA TA TA TA TA CTA TA T- TA -A TA TA -A
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
4669087 TT TA TA -A TT TA TA AA CTA TA TA GTT TA TA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA
4669129 TA TA TA TA CTA TA T
1 TA TA TA TA -TA TA T
4669143 TAATATAAAT
Statistics
Matches: 100, Mismatches: 17, Indels: 32
0.67 0.11 0.21
Matches are distributed among these distances:
1 10 0.10
2 82 0.82
3 8 0.08
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4669078 original size:66 final size:58
Alignment explanation
Indices: 4669001--4669150 Score: 141
Period size: 54 Copynumber: 2.5 Consensus size: 58
4668991 ATAGTGTTTC
*
4669001 TATAAACTATATATATATATATCTATATATAATCTATAAAATACTTATATTAGTTATACATACAT
1 TATATACTATATATATATATAT-TATATATAAT-T-TAAAA-AC-TATA-TAGTT-TACATA-AT
4669066 A
58 A
* * *
4669067 TATATACTATAT-TA-ATATA--ATTTATAATTTATAAACTATATAGTTTATATAATA
1 TATATACTATATATATATATATTATATATAATTTAAAAACTATATAGTTTACATAATA
4669121 TATATA-TATATATATACTATATTA-ATATAA
1 TATATACTATATATATA-TATATTATATATAA
4669151 ATTATAGTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
53 5 0.07
54 11 0.15
55 6 0.08
56 9 0.12
57 9 0.12
58 3 0.04
59 4 0.05
60 1 0.01
61 8 0.11
64 5 0.07
65 2 0.03
66 11 0.15
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.45
Consensus pattern (58 bp):
TATATACTATATATATATATATTATATATAATTTAAAAACTATATAGTTTACATAATA
Found at i:4669138 original size:64 final size:64
Alignment explanation
Indices: 4669055--4669196 Score: 203
Period size: 64 Copynumber: 2.2 Consensus size: 64
4669045 TTATATTAGT
* * * *
4669055 TATACATACATATATATACTATATTAATATAATTTATAATTTATAAACTATATAGTTTATATAA
1 TATATATATATATATATACTATATTAATATAAATTATAATTTATAAACTATATACTTTATATAA
* * *
4669119 TATATATATATATATATACTATATTAATATAAATTATAGTTTATAAACTATATACTTTTTATAG
1 TATATATATATATATATACTATATTAATATAAATTATAATTTATAAACTATATACTTTATATAA
* *
4669183 TTTATACATATATA
1 TATATATATATATA
4669197 CATAGTTTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (64 bp):
TATATATATATATATATACTATATTAATATAAATTATAATTTATAAACTATATACTTTATATAA
Found at i:4670185 original size:7 final size:7
Alignment explanation
Indices: 4670173--4670244 Score: 81
Period size: 7 Copynumber: 10.3 Consensus size: 7
4670163 GTCTATTATA
4670173 TTAGGGT
1 TTAGGGT
4670180 TTAGGGT
1 TTAGGGT
4670187 TTAGGGT
1 TTAGGGT
**
4670194 TTAGTAT
1 TTAGGGT
*
4670201 TTAGTGT
1 TTAGGGT
*
4670208 TTATGGT
1 TTAGGGT
*
4670215 TTAGGAT
1 TTAGGGT
*
4670222 TTAAGGT
1 TTAGGGT
4670229 TTAGGGT
1 TTAGGGT
*
4670236 TTAAGGT
1 TTAGGGT
4670243 TT
1 TT
4670245 CTATAAATAA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (7 bp):
TTAGGGT
Found at i:4670363 original size:21 final size:21
Alignment explanation
Indices: 4670305--4670363 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
4670295 TCCATTTATA
*
4670305 TTAGGGCTTACAATTT-AGTGT
1 TTAGGGTTTA-AATTTAAGTGT
*
4670326 TTATGGTTTAAAGTTTAAGT-T
1 TTAGGGTTTAAA-TTTAAGTGT
4670347 TTAGGGTTTATAATTTA
1 TTAGGGTTTA-AATTTA
4670364 GGGTATAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 2 0.06
21 25 0.78
22 5 0.16
ACGTcount: A:0.27, C:0.03, G:0.20, T:0.49
Consensus pattern (21 bp):
TTAGGGTTTAAATTTAAGTGT
Found at i:4670466 original size:2 final size:2
Alignment explanation
Indices: 4670461--4670513 Score: 54
Period size: 2 Copynumber: 26.0 Consensus size: 2
4670451 TTATATAGTT
** *
4670461 TA TA TA TA TA TA TA TA TA TA TA GG T- TA TA TA TA TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
4670503 TA TA TA CTA TA
1 TA TA TA -TA TA
4670514 CATGATTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
1 1 0.02
2 39 0.91
3 3 0.07
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4670472 original size:15 final size:15
Alignment explanation
Indices: 4670461--4670513 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
4670451 TTATATAGTT
*
4670461 TATATATA-TATATA
1 TATATATAGTTTATA
*
4670475 TATATATAGGTTATA
1 TATATATAGTTTATA
4670490 TATATATAGTTTATA
1 TATATATAGTTTATA
4670505 TATACTATA
1 TATA-TATA
4670514 CATGATTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 8 0.24
15 22 0.65
16 4 0.12
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (15 bp):
TATATATAGTTTATA
Found at i:4670672 original size:2 final size:2
Alignment explanation
Indices: 4670660--4670731 Score: 78
Period size: 2 Copynumber: 37.0 Consensus size: 2
4670650 ATAATGTTTC
* *
4670660 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
4670701 TA TA GT- TA TA CA TA -A TA TA TA TT TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4670732 AATTATAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
1 3 0.05
2 54 0.93
3 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4670971 original size:19 final size:19
Alignment explanation
Indices: 4670948--4671023 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
4670938 TATTTCCAAA
4670948 TAAAATCTCAATTTCCCTC
1 TAAAATCTCAATTTCCCTC
* ***
4670967 CAAAAT-TTTTTATTCCCTC
1 TAAAATCTCAAT-TTCCCTC
* *
4670986 TAAATTTCTCAATTTTCCTC
1 TAAA-ATCTCAATTTCCCTC
*
4671006 TAAATTCTCAATTTCCCT
1 TAAAATCTCAATTTCCCT
4671024 ATATTCTCAA
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
18 2 0.05
19 28 0.65
20 11 0.26
21 2 0.05
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATCTCAATTTCCCTC
Found at i:4671031 original size:17 final size:19
Alignment explanation
Indices: 4670982--4671033 Score: 72
Period size: 17 Copynumber: 2.8 Consensus size: 19
4670972 TTTTTTATTC
4670982 CCTCTAAATTTCTCAATTTT
1 CCTCTAAA-TTCTCAATTTT
4671002 CCTCTAAATTCTCAA-TTT
1 CCTCTAAATTCTCAATTTT
*
4671020 CC-CTATATTCTCAA
1 CCTCTAAATTCTCAA
4671034 AACTTCTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 11 0.35
18 5 0.16
19 7 0.23
20 8 0.26
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (19 bp):
CCTCTAAATTCTCAATTTT
Found at i:4671216 original size:2 final size:2
Alignment explanation
Indices: 4671206--4671238 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
4671196 TATATAAACT
4671206 TA TA T- TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4671239 TTTTTCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:4671224 original size:23 final size:23
Alignment explanation
Indices: 4671194--4671238 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4671184 TTTTATAGTT
4671194 TATATATAAACT-TATATTATATA
1 TATATATAAA-TATATATTATATA
*
4671217 TATATATATATATATATTATAT
1 TATATATAAATATATATTATAT
4671239 TTTTTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TATATATAAATATATATTATATA
Found at i:4671888 original size:15 final size:15
Alignment explanation
Indices: 4671864--4671904 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
4671854 ATCTGCTTCA
*
4671864 GACCTTAACTGTTTT
1 GACCTGAACTGTTTT
4671879 GACCTGAACTGTTTT
1 GACCTGAACTGTTTT
4671894 GACCTGAACTG
1 GACCTGAACTG
4671905 ACATCGATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (15 bp):
GACCTGAACTGTTTT
Found at i:4671998 original size:64 final size:64
Alignment explanation
Indices: 4671926--4672099 Score: 294
Period size: 64 Copynumber: 2.7 Consensus size: 64
4671916 AACTGAAAAA
4671926 TGACCTGACCTGAACCCGATTTGGATATGGTGTCAAATCAATCTGAAAATAACCCGAACTGATT
1 TGACCTGACCTGAACCCGATTTGGATATGGTGTCAAATCAATCTGAAAATAACCCGAACTGATT
*
4671990 TGACCTGACCTGAATCCGATTTGGATATGGTGTCAAATCAATCTGAAAATAACCCGAACTGATT
1 TGACCTGACCTGAACCCGATTTGGATATGGTGTCAAATCAATCTGAAAATAACCCGAACTGATT
* * * * *
4672054 TGACCTGACTTGAACCCGATCTGAATCTGGTGTCAAATCAACCTGA
1 TGACCTGACCTGAACCCGATTTGGATATGGTGTCAAATCAATCTGA
4672100 GTTGATATGT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 103 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (64 bp):
TGACCTGACCTGAACCCGATTTGGATATGGTGTCAAATCAATCTGAAAATAACCCGAACTGATT
Found at i:4679189 original size:23 final size:23
Alignment explanation
Indices: 4679146--4679203 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
4679136 ACGACGAAAA
*
4679146 CTACTAAAGACAAAGAAAAACTTG
1 CTAC-AAAGACAAAGAAAAACGTG
*
4679170 CTACAAAGACAGAA-ATAAACGTG
1 CTACAAAGACA-AAGAAAAACGTG
* *
4679193 TTACAATGACA
1 CTACAAAGACA
4679204 TCATTAGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.52, C:0.17, G:0.14, T:0.17
Consensus pattern (23 bp):
CTACAAAGACAAAGAAAAACGTG
Found at i:4684372 original size:30 final size:30
Alignment explanation
Indices: 4684337--4684453 Score: 139
Period size: 30 Copynumber: 3.9 Consensus size: 30
4684327 TATAGATAAA
*
4684337 CAGAACGGAGATA-TAATCCCATGTAGATGT
1 CAGAACGGAGA-ACTAATCCCATGCAGATGT
* **
4684367 TAGAACATAGAACTAATCCCATGCAGATGT
1 CAGAACGGAGAACTAATCCCATGCAGATGT
* *
4684397 CAGAACTGAGAACTAATCCCATGCAAATGT
1 CAGAACGGAGAACTAATCCCATGCAGATGT
*
4684427 CAGAACGG-GAAACCAATCCCATGCAGA
1 CAGAACGGAG-AACTAATCCCATGCAGA
4684454 ACAGAAATAC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
29 2 0.03
30 72 0.97
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (30 bp):
CAGAACGGAGAACTAATCCCATGCAGATGT
Found at i:4691367 original size:13 final size:13
Alignment explanation
Indices: 4691349--4691379 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4691339 TCAACGAGAT
*
4691349 TAATATAATTTTA
1 TAATATAATTTAA
4691362 TAATATAATTTAA
1 TAATATAATTTAA
4691375 TAATA
1 TAATA
4691380 AATATATAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATATAATTTAA
Found at i:4691672 original size:19 final size:19
Alignment explanation
Indices: 4691648--4691689 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
4691638 ATATTTTCGT
4691648 TATAGATATC-AAAATCCGG
1 TATAGATA-CAAAAATCCGG
4691667 TATAGATACAAAAATCCGG
1 TATAGATACAAAAATCCGG
4691686 TATA
1 TATA
4691690 TCCCAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.26
Consensus pattern (19 bp):
TATAGATACAAAAATCCGG
Found at i:4698414 original size:21 final size:21
Alignment explanation
Indices: 4698390--4698450 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
4698380 AACTTTGAAA
4698390 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
4698411 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
4698425 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
4698446 AAATG
1 AAATG
4698451 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:4698481 original size:37 final size:35
Alignment explanation
Indices: 4698389--4698498 Score: 168
Period size: 35 Copynumber: 3.1 Consensus size: 35
4698379 CAACTTTGAA
4698389 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
4698424 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
* * *
4698459 AAAATTAGTTTTTCAAAGTTTGGTAGATGTTT-GTTG
1 AAAA-T-GGTTTTCAAAGTTTGGTAAATGTTTCTTTG
4698495 AAAA
1 AAAA
4698499 ATGATAATGG
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 39 0.56
36 8 0.11
37 23 0.33
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.45
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Found at i:4703037 original size:21 final size:21
Alignment explanation
Indices: 4703013--4703073 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
4703003 AACTTTGAAA
4703013 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
4703034 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
4703048 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
4703069 AAATG
1 AAATG
4703074 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:4703104 original size:37 final size:37
Alignment explanation
Indices: 4703005--4703123 Score: 174
Period size: 35 Copynumber: 3.3 Consensus size: 37
4702995 TGGTAACCAA
4703005 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GGTTTTCAAAGTTTGGTAAATGTTT
4703042 CTTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
* *
4703077 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
*
4703114 -GTTGAAAAAT
1 CTTTGAAAAAT
4703124 GATAATGGGA
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
35 30 0.39
36 18 0.24
37 28 0.37
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (37 bp):
CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:4705617 original size:44 final size:45
Alignment explanation
Indices: 4705530--4705617 Score: 101
Period size: 44 Copynumber: 2.0 Consensus size: 45
4705520 TTGGTTGTTC
* ***
4705530 AAACGAAGTAAAGAATTCATTGAGAAGAAAGAAACTTGGCAATTA
1 AAACGAAGTAAAGAATTCATTGAGAAGAAAGAAAATAAACAATTA
4705575 AAAC-AAGTAAAGAATCTC-TTGAGAAGAAA-AACAATAAACAATT
1 AAACGAAGTAAAGAAT-TCATTGAGAAGAAAGAA-AATAAACAATT
4705618 TTGTAAATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
43 2 0.05
44 29 0.78
45 6 0.16
ACGTcount: A:0.55, C:0.10, G:0.16, T:0.19
Consensus pattern (45 bp):
AAACGAAGTAAAGAATTCATTGAGAAGAAAGAAAATAAACAATTA
Found at i:4705808 original size:19 final size:19
Alignment explanation
Indices: 4705780--4705827 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
4705770 TATATAAATT
**
4705780 TATTTTAACATGCTATTAA
1 TATTTTAACACACTATTAA
* *
4705799 TATTTGAACACATTATTAA
1 TATTTTAACACACTATTAA
4705818 TATTTTAACA
1 TATTTTAACA
4705828 AGTAAGGTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (19 bp):
TATTTTAACACACTATTAA
Found at i:4710084 original size:24 final size:24
Alignment explanation
Indices: 4710057--4710103 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
4710047 CCTGGCATGG
4710057 ATTTTGAACGGATACTTGACCTGA
1 ATTTTGAACGGATACTTGACCTGA
* *
4710081 ATTTTGATCTGATACTTGACCTG
1 ATTTTGAACGGATACTTGACCTG
4710104 GACTATGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (24 bp):
ATTTTGAACGGATACTTGACCTGA
Found at i:4711002 original size:18 final size:19
Alignment explanation
Indices: 4710960--4710999 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
4710950 TTTGATTCAC
4710960 GGAATGTAAGATTAACAGTG
1 GGAATGTAAGATTAACAG-G
*
4710980 GGAATGTAAGATTACCAGG
1 GGAATGTAAGATTAACAGG
4710999 G
1 G
4711000 AATATGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.23
Consensus pattern (19 bp):
GGAATGTAAGATTAACAGG
Found at i:4712353 original size:12 final size:12
Alignment explanation
Indices: 4712333--4712363 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4712323 CTGAATGAAA
4712333 ATATATATGTGT
1 ATATATATGTGT
*
4712345 ATGTATATGTGT
1 ATATATATGTGT
4712357 ATATATA
1 ATATATA
4712364 CCGAGTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
ATATATATGTGT
Found at i:4712659 original size:64 final size:64
Alignment explanation
Indices: 4712558--4712745 Score: 333
Period size: 64 Copynumber: 3.0 Consensus size: 64
4712548 ACACCCCATA
* * * *
4712558 AATATAACTACATAAATT-TAAAACCTTTATAATGAACAACATTTTAATATTCTTTTCTATATC
1 AATATAACTGCTTAAATTAAAAAACCTTTATAAAGAACAACATTTTAATATTCTTTTCTATATC
4712621 AATATAACTGCTTAAATTAAAAAACCTTTATAAAGAACAACATTTTAATATTCTTTTCTATATC
1 AATATAACTGCTTAAATTAAAAAACCTTTATAAAGAACAACATTTTAATATTCTTTTCTATATC
4712685 AATATAACTGCTTAAATTAAAAAACCTTTATAAAGAACAACATTTTAATATTCTTTTCTAT
1 AATATAACTGCTTAAATTAAAAAACCTTTATAAAGAACAACATTTTAATATTCTTTTCTAT
4712746 CACTAAAGTC
Statistics
Matches: 120, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
63 16 0.13
64 104 0.87
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.40
Consensus pattern (64 bp):
AATATAACTGCTTAAATTAAAAAACCTTTATAAAGAACAACATTTTAATATTCTTTTCTATATC
Found at i:4712784 original size:3 final size:3
Alignment explanation
Indices: 4712776--4712815 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
4712766 TTCTTTGTCG
4712776 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4712816 TGGATGATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4715323 original size:283 final size:283
Alignment explanation
Indices: 4714809--4715325 Score: 732
Period size: 283 Copynumber: 1.8 Consensus size: 283
4714799 TGACATTTTC
* * *
4714809 GTGCAATCATACGAATATGTGACATTATAAGGATTCAACAATGTGAGACATTTTCGTGTAATCAT
1 GTGCAACCATACGAATATATGACATTATAAGGATTCAACAATGTGAGACATTTTCGTGCAATCAT
* * *
4714874 ACACTAGCAAGCAGATGGTTCAGTTTCACACACTGACACTATAAAACACCAGCTACAGCTAAACT
66 ACACTAACAAGCAGATGGTTCAGTTTCACACACTAACACCATAAAACACCAGCTACAGCTAAACT
* * * **** *
4714939 AGATTGGACCTGGTAACGCTGGATTCTACACTAGAGAAATCACTAAAGCCATGACAGGGGAAAAG
131 AGATTGGACCTGGTAACGCTGGATTCGACACTACAGAAATCACTAAAACCATGACACAAAAAAAA
*
4715004 CACAAACATAGAAATACTATAAGACCGTGTCAAAATCTATATGATATGAATGGATCGGATAGAGA
196 CACAAACATAGAAATAATATAAGACCGTGTCAAAATCTATATGATATGAATGGATCGGATAGAGA
4715069 CTTTCATGACATGTGTCATATTT
261 CTTTCATGACATGTGTCATATTT
* * **
4715092 GTGCAACCATACGAATATATGGCATTCTAAGGATTCAATGATGTGAGACATTTTCGTGCAATCAT
1 GTGCAACCATACGAATATATGACATTATAAGGATTCAACAATGTGAGACATTTTCGTGCAATCAT
** *
4715157 ACACTAACAAGC-GCATGGTTCAGTTTCACATGCTAACGCCATAAAACACCAGCTACAGCTAAAC
66 ACACTAACAAGCAG-ATGGTTCAGTTTCACACACTAACACCATAAAACACCAGCTACAGCTAAAC
* *
4715221 TAGATTGGACCTGGTAATGCTGGATTCGA-AGTTACAGAAATCACTAAAACCATGACACAAAAAA
130 TAGATTGGACCTGGTAACGCTGGATTCGACA-CTACAGAAATCACTAAAACCATGACACAAAAAA
* * *** *
4715285 AACACAAGCGTTTTAATAATATACGACCGTGTCAAAATCTA
194 AACACAAACATAGAAATAATATAAGACCGTGTCAAAATCTA
4715326 CATAATATAA
Statistics
Matches: 202, Mismatches: 30, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
282 2 0.01
283 200 0.99
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (283 bp):
GTGCAACCATACGAATATATGACATTATAAGGATTCAACAATGTGAGACATTTTCGTGCAATCAT
ACACTAACAAGCAGATGGTTCAGTTTCACACACTAACACCATAAAACACCAGCTACAGCTAAACT
AGATTGGACCTGGTAACGCTGGATTCGACACTACAGAAATCACTAAAACCATGACACAAAAAAAA
CACAAACATAGAAATAATATAAGACCGTGTCAAAATCTATATGATATGAATGGATCGGATAGAGA
CTTTCATGACATGTGTCATATTT
Found at i:4718054 original size:18 final size:18
Alignment explanation
Indices: 4718044--4718086 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
4718034 TTAATAATAA
4718044 AATAATAATTATAATTAT
1 AATAATAATTATAATTAT
*
4718062 AATTATAATTATAATTAT
1 AATAATAATTATAATTAT
4718080 AATAATA
1 AATAATA
4718087 TAAATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATAATAATTATAATTAT
Found at i:4718092 original size:6 final size:6
Alignment explanation
Indices: 4718048--4718082 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
4718038 TAATAAAATA
4718048 ATAATT ATAATT ATAATT ATAATT ATAATT ATAAT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAAT
4718083 AATATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
ATAATT
Found at i:4718093 original size:12 final size:11
Alignment explanation
Indices: 4718035--4718095 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
4718025 TAATATTTAT
*
4718035 TAATAATAAAA
1 TAATAATTAAA
4718046 TAATAATTATAA
1 TAATAATTA-AA
*
4718058 TTATAATTATAA
1 TAATAATTA-AA
*
4718070 TTATAATT--A
1 TAATAATTAAA
4718079 TAATAATATAAA
1 TAATAAT-TAAA
4718091 TAATA
1 TAATA
4718096 TTCAAATGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
9 7 0.16
10 1 0.02
11 8 0.19
12 27 0.63
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAATAATTAAA
Found at i:4718327 original size:22 final size:24
Alignment explanation
Indices: 4718274--4718327 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
4718264 TAGATTATTT
* *
4718274 TTAAATATTTTTAATATAATAGAA
1 TTAATTATTTTTAATAGAATAGAA
*
4718298 TTATATTATTTTT-ATAGAAT-GTA
1 TTA-ATTATTTTTAATAGAATAGAA
4718321 TTAATTA
1 TTAATTA
4718328 CTATTTGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 4 0.15
23 5 0.19
24 9 0.35
25 8 0.31
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.52
Consensus pattern (24 bp):
TTAATTATTTTTAATAGAATAGAA
Found at i:4719171 original size:3 final size:3
Alignment explanation
Indices: 4719165--4719225 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
4719155 TAATATTTAT
* * * *
4719165 TAA TAA TAA -AA TAA TAA TTA TAA TTA TAA TTA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4719212 TAA T-A TAAA TAA TA
1 TAA TAA T-AA TAA TA
4719226 TTCAAATGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.88
4 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:4719179 original size:21 final size:20
Alignment explanation
Indices: 4719153--4719225 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 20
4719143 TTGGGCCTGT
*
4719153 AATAATATTTATTAATAATAA
1 AATAATAATTA-TAATAATAA
*
4719174 AATAATAATTATAATTATAA
1 AATAATAATTATAATAATAA
*
4719194 TTATTATAATAATAATAATAATATA
1 --A--ATAATAATTATAATAATA-A
4719219 AATAATA
1 AATAATA
4719226 TTCAAATGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 8 0.19
21 16 0.37
22 1 0.02
23 1 0.02
24 16 0.37
25 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATAATAATTATAATAATAA
Found at i:4720353 original size:113 final size:113
Alignment explanation
Indices: 4719563--4720344 Score: 1181
Period size: 113 Copynumber: 6.9 Consensus size: 113
4719553 ATAGAGTCAT
*
4719563 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
4719628 ATTATGAACT-TTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTTAA
66 ATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAGTGATGAATTTAA
* * *
4719676 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
** * * * *
4719741 ATTATGAACTCTAATTGGCATTGCTGATCCACCGAGTGATGAATTTAA
66 ATTATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTTAA
* * * *
4719789 GCAAAAAGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
4719854 ATTATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTCAA
66 ATTATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTTAA
*
4719902 GCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * *
4719967 ATTATGAACTCTAACTGGCATTGCTGATCCACCGAGTGATGAATTTAA
66 ATTATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTTAA
* * * *
4720015 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
4720080 ATTATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTCAA
66 ATTATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTTAA
*
4720128 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * * *
4720193 ATTATGAACT-TTCTTTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAGTGATGAATTTAA
*
4720241 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
4720306 ATTATGAACTTTACCTGGCAATGTTGATCCATCAAGTGA
66 ATTATGAACTCTACCTGGCAATGTTGATCCATCAAGTGA
4720345 AGGATTTGAA
Statistics
Matches: 599, Mismatches: 67, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
112 2 0.00
113 594 0.99
114 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTTAA
Found at i:4721525 original size:19 final size:17
Alignment explanation
Indices: 4721501--4721549 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
4721491 AAAATAAAAG
4721501 AATAAATTGAATTTTCAAA
1 AATAAATTGAATTTTC--A
*
4721520 AATAAATTGAA-TCTCA
1 AATAAATTGAATTTTCA
4721536 AATAAATTGAATTT
1 AATAAATTGAATTT
4721550 AGAAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.44
17 1 0.04
18 3 0.11
19 11 0.41
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (17 bp):
AATAAATTGAATTTTCA
Found at i:4729267 original size:15 final size:15
Alignment explanation
Indices: 4729244--4729275 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4729234 TGCAATGAAT
4729244 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
4729259 AATGCATGTATGCAA
1 AATGAATGTATGCAA
4729274 AA
1 AA
4729276 GGGATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:4733596 original size:13 final size:13
Alignment explanation
Indices: 4733558--4733588 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
4733548 GCTAAAATAT
4733558 AATAAAATAAAAA
1 AATAAAATAAAAA
4733571 AATAAAATAAAAA
1 AATAAAATAAAAA
4733584 AATAA
1 AATAA
4733589 TTTAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AATAAAATAAAAA
Found at i:4733638 original size:192 final size:192
Alignment explanation
Indices: 4733414--4733760 Score: 662
Period size: 193 Copynumber: 1.8 Consensus size: 192
4733404 AAAAAAGTAA
4733414 AAAACTTGTAGTAAAATAAATGAAGATATTAAAATTAATGACTAAATTAAAATATATT-ATATTA
1 AAAACTTGTAGTAAAATAAATGAAGATATTAAAATTAATGACTAAATTAAAATATATTAATA-TA
4733478 AATACCC-AATTTGTAATGTTATGAAATATAATAACTAATAGTGTAATTTAACCTTAATTATTTA
65 AATACCCTAATTTGTAATGTTATGAAATATAATAACTAATAGTGTAATTTAACCTTAATTATTTA
4733542 TTCAGGGCTAAAATATAATAAAATAAAAAAATAAAATAAAAAAATAATTTAAAAATAAAAGAT
130 TTCAGGGCTAAAATATAATAAAATAAAAAAATAAAATAAAAAAATAATTTAAAAATAAAAGAT
4733605 AAAACTTGTAGTTAAAATAAATGAAGATATTAAAATTAATGACTAAATTAAAATATATTAATATA
1 AAAACTTGTAG-TAAAATAAATGAAGATATTAAAATTAATGACTAAATTAAAATATATTAATATA
4733670 AATACCCTAATTTGTAATGTTATGAAATATAATAACTAATAGTGTAATTTAACCTTAATTATTTA
65 AATACCCTAATTTGTAATGTTATGAAATATAATAACTAATAGTGTAATTTAACCTTAATTATTTA
4733735 TTCAGGGCTAAAATATAATAAAATAA
130 TTCAGGGCTAAAATATAATAAAATAA
4733761 TATTGGAAGA
Statistics
Matches: 153, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
191 11 0.07
192 56 0.37
193 86 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (192 bp):
AAAACTTGTAGTAAAATAAATGAAGATATTAAAATTAATGACTAAATTAAAATATATTAATATAA
ATACCCTAATTTGTAATGTTATGAAATATAATAACTAATAGTGTAATTTAACCTTAATTATTTAT
TCAGGGCTAAAATATAATAAAATAAAAAAATAAAATAAAAAAATAATTTAAAAATAAAAGAT
Found at i:4734807 original size:3 final size:3
Alignment explanation
Indices: 4734801--4734841 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
4734791 TAATATTTAT
4734801 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA
4734842 TTCAAATGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 32 0.89
4 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4745951 original size:42 final size:41
Alignment explanation
Indices: 4745893--4745978 Score: 136
Period size: 42 Copynumber: 2.1 Consensus size: 41
4745883 TACGTATTAT
*
4745893 AATAATAAAACATTAAAATAAATTAGTTATATAAAATAGAG
1 AATAATAAAAAATTAAAATAAATTAGTTATATAAAATAGAG
* *
4745934 AATAATTAAAAAATTAAAATAAATTAGTTGTATAAAATATAG
1 AATAA-TAAAAAATTAAAATAAATTAGTTATATAAAATAGAG
4745976 AAT
1 AAT
4745979 TAAAAATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 5 0.12
42 36 0.88
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.31
Consensus pattern (41 bp):
AATAATAAAAAATTAAAATAAATTAGTTATATAAAATAGAG
Found at i:4746042 original size:3 final size:3
Alignment explanation
Indices: 4746034--4746063 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4746024 GAAAAGATCA
4746034 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4746064 TTTAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4747093 original size:2 final size:2
Alignment explanation
Indices: 4747076--4747117 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
4747066 ATGTAATGAC
*
4747076 TA TA -A TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4747117 T
1 T
4747118 GAAAATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4747159 original size:16 final size:15
Alignment explanation
Indices: 4747123--4747164 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
4747113 TATATGAAAA
4747123 TAAAAGATAAAATATG
1 TAAAA-ATAAAATATG
*
4747139 T-AAAATAATAATTTG
1 TAAAAATAA-AATATG
4747154 TAAAAATAAAA
1 TAAAAATAAAA
4747165 AATAAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 4 0.17
15 11 0.48
16 8 0.35
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (15 bp):
TAAAAATAAAATATG
Found at i:4747237 original size:24 final size:24
Alignment explanation
Indices: 4747189--4747242 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
4747179 ATGATATTAC
* * *
4747189 ATAATAATAATATTAATATTGAAA
1 ATAATAATAATAGTAATAGTAAAA
*
4747213 ATAATAATAATAGTAATGGTAAAA
1 ATAATAATAATAGTAATAGTAAAA
4747237 A-AATAA
1 ATAATAA
4747243 AAGAAAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (24 bp):
ATAATAATAATAGTAATAGTAAAA
Found at i:4748674 original size:20 final size:20
Alignment explanation
Indices: 4748651--4748692 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4748641 GAATCCTTCG
4748651 TCGTGAAATTGAAAACGAAC
1 TCGTGAAATTGAAAACGAAC
* *
4748671 TCGTGAAGTTGAAATCGAAC
1 TCGTGAAATTGAAAACGAAC
4748691 TC
1 TC
4748693 AGAGTTCTGG
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:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (20 bp):
TCGTGAAATTGAAAACGAAC
Found at i:4748848 original size:43 final size:43
Alignment explanation
Indices: 4748787--4748942 Score: 150
Period size: 43 Copynumber: 3.4 Consensus size: 43
4748777 ACCAGCGGTC
*
4748787 CCTTCGTTGTGAAGTTGAACTTGCGTTGTTTGGAGTCCAATAT
1 CCTTCGTTGTGAAGTTGAACTTGCGTTGTTTGGAATCCAATAT
* * * * * ***
4748830 CCTTCGTTGTGAAGTTGAAATTGGGAAACTGTTTATTGACAACCAGCGGT
1 CCTTCGTTGTGAAGTTGAACTTGCG---TTG-TT-TGGA-ATCCA-ATAT
*
4748880 CCCTTCGTTGTGAAGTTGAACTTGCGTTGTTTGGATTCCAATAT
1 -CCTTCGTTGTGAAGTTGAACTTGCGTTGTTTGGAATCCAATAT
4748924 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTTGTGAAGTTGAA
4748943 ATTGGCTCTG
Statistics
Matches: 87, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
43 42 0.48
44 1 0.01
45 3 0.03
46 5 0.06
47 4 0.05
48 5 0.06
49 3 0.03
50 1 0.01
51 23 0.26
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (43 bp):
CCTTCGTTGTGAAGTTGAACTTGCGTTGTTTGGAATCCAATAT
Found at i:4749232 original size:105 final size:105
Alignment explanation
Indices: 4749050--4749458 Score: 782
Period size: 105 Copynumber: 3.9 Consensus size: 105
4749040 AAATCGAACT
* * *
4749050 TGTTTATTGACAACCAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGCCTGGAGTCCAATAT
1 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
4749115 CCTTCGTTGTGAAGTTGAAATTGGCTCCGAATTTGAGAAA
66 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
4749155 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
4749220 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
66 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
4749260 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
4749325 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
66 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
4749365 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
4749430 CCTTCGTTGTGAAGTTGAAATTGGCTCTG
66 CCTTCGTTGTGAAGTTGAAATTGGCTCTG
4749459 GGTAAAACCT
Statistics
Matches: 300, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 300 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (105 bp):
TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
Found at i:4761000 original size:2 final size:2
Alignment explanation
Indices: 4760993--4761048 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
4760983 ATAATAATAC
4760993 AT AT AT 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 AT AT AT
4761035 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
4761049 GAAAATAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4761165 original size:21 final size:21
Alignment explanation
Indices: 4761121--4761185 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
4761111 ATATATACAT
* ** *
4761121 AAATAATAATATTAATATTGA
1 AAATAATAATAGTAATGGTAA
4761142 AAATAATAATAGTAATGGTAA
1 AAATAATAATAGTAATGGTAA
* *
4761163 AAA-AATAAAAGAAAATGGTAA
1 AAATAATAATAG-TAATGGTAA
4761184 AA
1 AA
4761186 TATTCGTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 7 0.19
21 30 0.81
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (21 bp):
AAATAATAATAGTAATGGTAA
Found at i:4762873 original size:2 final size:2
Alignment explanation
Indices: 4762868--4762909 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4762858 CCCCCCCCCT
4762868 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4762910 AGTAGATAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4765108 original size:18 final size:18
Alignment explanation
Indices: 4765085--4765156 Score: 83
Period size: 18 Copynumber: 4.0 Consensus size: 18
4765075 GCACTGAATA
*
4765085 TTGTCCCGAAGGATCACT
1 TTGTCCCGAAGGACCACT
* *
4765103 TTGTCCCAAAGGATCACT
1 TTGTCCCGAAGGACCACT
*
4765121 ATGTCCCGAAGGACCA-T
1 TTGTCCCGAAGGACCACT
*
4765138 TATGTCTCGAAGGACCACT
1 T-TGTCCCGAAGGACCACT
4765157 GATAATCCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
17 1 0.02
18 44 0.96
19 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (18 bp):
TTGTCCCGAAGGACCACT
Found at i:4765833 original size:62 final size:64
Alignment explanation
Indices: 4765727--4765879 Score: 195
Period size: 62 Copynumber: 2.4 Consensus size: 64
4765717 GGTACATCCC
* ** * *
4765727 TTAACGGGTGTATCGATACACTACATGTGTATCGGTACTCAAATTACATTCG-AAGTTTT-CATT
1 TTAA-GGGGGTATCGATACACTACATAAGTATCGATACTCAAATTACATTCGAAAGTTTTCCACT
* * *
4765790 TTAAGGGGGTATCGATACACTGCCTAAGTATCGATACTCAAATTACATTCGAAATTTTTCCACT
1 TTAAGGGGGTATCGATACACTACATAAGTATCGATACTCAAATTACATTCGAAAGTTTTCCACT
*
4765854 TCAAGGGGGTATCGATACACT-CATAA
1 TTAAGGGGGTATCGATACACTACATAA
4765880 AGGTATTGAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
62 41 0.53
63 14 0.18
64 23 0.29
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (64 bp):
TTAAGGGGGTATCGATACACTACATAAGTATCGATACTCAAATTACATTCGAAAGTTTTCCACT
Found at i:4768320 original size:20 final size:20
Alignment explanation
Indices: 4768265--4768320 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
4768255 TTTTTGCAAT
4768265 TCGATTTT-TAAATTCGTAAC
1 TCGATTTTCT-AATTCGTAAC
* * *
4768285 ACGAGTTTCGT-TTTCGTAAC
1 TCGATTTTC-TAATTCGTAAC
4768305 TCGATTTTCTAATTCG
1 TCGATTTTCTAATTCG
4768321 CAATGCGAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
22 1 0.04
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (20 bp):
TCGATTTTCTAATTCGTAAC
Found at i:4768354 original size:20 final size:20
Alignment explanation
Indices: 4768326--4768364 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4768316 ATTCGCAATG
*
4768326 CGAAATTTAATTTCTCAACA
1 CGAAATTTAATTTCGCAACA
* *
4768346 CGAATTTTATTTTCGCAAC
1 CGAAATTTAATTTCGCAAC
4768365 TCGATTTTCG
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:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (20 bp):
CGAAATTTAATTTCGCAACA
Found at i:4768414 original size:60 final size:60
Alignment explanation
Indices: 4768271--4768404 Score: 171
Period size: 60 Copynumber: 2.2 Consensus size: 60
4768261 CAATTCGATT
* * * ** * *
4768271 TTTAAATTCGTAACACGAGTTTCGTTTTCGTAACTCGATTTTCTAATTCGCAATGCGAAA
1 TTTAATTTCGCAACACGAATTTTATTTTCGCAACTCGATTTTCGAATTCGCAATGCGAAA
* *
4768331 TTTAATTTCTCAACACGAATTTTATTTTCGCAACTCGATTTTCGAATTCGCAATGTG-AA
1 TTTAATTTCGCAACACGAATTTTATTTTCGCAACTCGATTTTCGAATTCGCAATGCGAAA
4768390 TTTAAATTTCGCAAC
1 TTT-AATTTCGCAAC
4768405 TCAGCTTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 5 0.08
60 58 0.92
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (60 bp):
TTTAATTTCGCAACACGAATTTTATTTTCGCAACTCGATTTTCGAATTCGCAATGCGAAA
Found at i:4768420 original size:60 final size:60
Alignment explanation
Indices: 4768296--4768423 Score: 161
Period size: 60 Copynumber: 2.1 Consensus size: 60
4768286 CGAGTTTCGT
* * * *
4768296 TTTCGTAACTCGATTTTCTAATTCGCAATGCGAAATTTAATTTCTCAACACGAATTTTAT
1 TTTCGCAACTCGATTTTCGAATTCGCAATGCGAAATTTAATTTCGCAACACGAATTTTAA
* * *
4768356 TTTCGCAACTCGATTTTCGAATTCGCAATGTG-AATTTAAATTTCGCAACTC-AGCTTTTAA
1 TTTCGCAACTCGATTTTCGAATTCGCAATGCGAAATTT-AATTTCGCAACACGA-ATTTTAA
4768416 TTTCGCAA
1 TTTCGCAA
4768424 TACAAATGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 6 0.10
60 53 0.90
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.40
Consensus pattern (60 bp):
TTTCGCAACTCGATTTTCGAATTCGCAATGCGAAATTTAATTTCGCAACACGAATTTTAA
Found at i:4768421 original size:40 final size:39
Alignment explanation
Indices: 4768347--4768424 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 39
4768337 TTCTCAACAC
* *
4768347 GAATTTTATTTTCGCAACTCGATTTTCGAATTCGCAATGT
1 GAATTTAAATTTCGCAACTCGATTTTC-AATTCGCAATGT
*
4768387 GAATTTAAATTTCGCAACTCAGCTTTT-AATTTCGCAAT
1 GAATTTAAATTTCGCAACTC-GATTTTCAA-TTCGCAAT
4768425 ACAAATGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 2 0.06
40 26 0.79
41 5 0.15
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (39 bp):
GAATTTAAATTTCGCAACTCGATTTTCAATTCGCAATGT
Found at i:4770432 original size:38 final size:41
Alignment explanation
Indices: 4770331--4770457 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 41
4770321 CCCCAATTTT
*
4770331 TCATCGAGTCGACTCT-CTA-CTTCGACATCGAAATCCATCACC
1 TCATC-AGTCGACTCTAC-ACCTT-GACATCGAGATCCATCACC
* *
4770373 TCATCGAGCCGATTCTACACCTTGACATCGAGAT-CATCACC
1 TCATC-AGTCGACTCTACACCTTGACATCGAGATCCATCACC
*
4770414 TC-T-AGTCGACTCTACACCTTGACA-CTGAGATCCATCACA
1 TCATCAGTCGACTCTACACCTTGACATC-GAGATCCATCACC
4770453 TCATC
1 TCATC
4770458 GAGCCTCTTC
Statistics
Matches: 73, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
37 1 0.01
38 24 0.33
39 8 0.11
40 2 0.03
41 9 0.12
42 25 0.34
43 4 0.05
ACGTcount: A:0.27, C:0.35, G:0.13, T:0.26
Consensus pattern (41 bp):
TCATCAGTCGACTCTACACCTTGACATCGAGATCCATCACC
Found at i:4770566 original size:21 final size:21
Alignment explanation
Indices: 4770540--4770691 Score: 153
Period size: 21 Copynumber: 7.2 Consensus size: 21
4770530 ACCTCCACGG
* *
4770540 GATGAGTTAGGTGCTTTACTT
1 GATGAGGTAGGTGCTTTACGT
* *
4770561 GATGAGGTATGTTCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
* *
4770582 GATGAGGTAGTTGATTTACGT
1 GATGAGGTAGGTGCTTTACGT
*
4770603 GATGAGGTAGGTGCTTTATGT
1 GATGAGGTAGGTGCTTTACGT
**
4770624 GATGA-CAATGGTGCTTTACGT
1 GATGAGGTA-GGTGCTTTACGT
* * *
4770645 GATGAGATACGTGTTTTACGT
1 GATGAGGTAGGTGCTTTACGT
* *
4770666 GATGAGATAGGTGTTTTACGT
1 GATGAGGTAGGTGCTTTACGT
*
4770687 AATGA
1 GATGA
4770692 CAATGGTTTC
Statistics
Matches: 109, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
20 1 0.01
21 107 0.98
22 1 0.01
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (21 bp):
GATGAGGTAGGTGCTTTACGT
Found at i:4770641 original size:63 final size:63
Alignment explanation
Indices: 4770540--4770698 Score: 180
Period size: 63 Copynumber: 2.5 Consensus size: 63
4770530 ACCTCCACGG
* ** * *
4770540 GATGAGTTAGGTGCTTTACT-TGATGAGGTAT-GTTCTTTACGTGATGAGGTA-GTTGATTTACG
1 GATGAGATAGGTGCTTTA-TGTGATGA-CAATGGTGCTTTACGTGATGAGATACG-TGATTTACG
4770602 T
63 T
* *
4770603 GATGAGGTAGGTGCTTTATGTGATGACAATGGTGCTTTACGTGATGAGATACGTGTTTTACGT
1 GATGAGATAGGTGCTTTATGTGATGACAATGGTGCTTTACGTGATGAGATACGTGATTTACGT
* * *
4770666 GATGAGATAGGTGTTTTACGTAATGACAATGGT
1 GATGAGATAGGTGCTTTATGTGATGACAATGGT
4770699 TTCATCACGT
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
62 3 0.04
63 79 0.95
64 1 0.01
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (63 bp):
GATGAGATAGGTGCTTTATGTGATGACAATGGTGCTTTACGTGATGAGATACGTGATTTACGT
Found at i:4770729 original size:21 final size:21
Alignment explanation
Indices: 4770700--4770809 Score: 159
Period size: 21 Copynumber: 5.2 Consensus size: 21
4770690 GACAATGGTT
4770700 TCATCACGTAAAGCACCTACC
1 TCATCACGTAAAGCACCTACC
* **
4770721 TCGTCACGTAAAGCACC-ATTG
1 TCATCACGTAAAGCACCTA-CC
*
4770742 TCATTACGTAAAGCACCTACC
1 TCATCACGTAAAGCACCTACC
4770763 TCATCACGTAAAGCACCTACC
1 TCATCACGTAAAGCACCTACC
*
4770784 TCTTCACGTAAAGCACCTACC
1 TCATCACGTAAAGCACCTACC
4770805 TCATC
1 TCATC
4770810 CCGTGGAGGT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
20 1 0.01
21 75 0.97
22 1 0.01
ACGTcount: A:0.31, C:0.35, G:0.11, T:0.23
Consensus pattern (21 bp):
TCATCACGTAAAGCACCTACC
Found at i:4770933 original size:21 final size:21
Alignment explanation
Indices: 4770909--4770973 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
4770899 GTGATGGAAT
4770909 AGGTGATGGATCTCGGTGTCG
1 AGGTGATGGATCTCGGTGTCG
* * * *
4770930 AGGTG-TAGA-GTCGG-CTAG
1 AGGTGATGGATCTCGGTGTCG
*
4770948 AGGTGATGGATCTTGGTGTCG
1 AGGTGATGGATCTCGGTGTCG
4770969 AGGTG
1 AGGTG
4770974 TAGAATCAGC
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 7 0.22
19 7 0.22
20 6 0.19
21 12 0.38
ACGTcount: A:0.17, C:0.11, G:0.45, T:0.28
Consensus pattern (21 bp):
AGGTGATGGATCTCGGTGTCG
Found at i:4770952 original size:39 final size:41
Alignment explanation
Indices: 4770909--4771009 Score: 152
Period size: 39 Copynumber: 2.5 Consensus size: 41
4770899 GTGATGGAAT
* *
4770909 AGGTGATGGATCTCGGTGTCGAGGTGTAGAGTCGGCT-A-G
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCAGCTCATG
*
4770948 AGGTGATGGATCTTGGTGTCGAGGTGTAGAATCAGCTCGATG
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCAGCTC-ATG
4770990 AGGTGATGGATCTCGGTGTC
1 AGGTGATGGATCTCGGTGTC
4771010 AAAGTGGAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
39 34 0.62
41 1 0.02
42 20 0.36
ACGTcount: A:0.19, C:0.13, G:0.41, T:0.28
Consensus pattern (41 bp):
AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCAGCTCATG
Found at i:4771030 original size:42 final size:41
Alignment explanation
Indices: 4770909--4771032 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 41
4770899 GTGATGGAAT
* * *
4770909 AGGTGATGGATCTCGGTGTCGAGGTGTAGAGTCG-GCTA-G
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCGATCGATG
* *
4770948 AGGTGATGGATCTTGGTGTCGAGGTGTAGAATCAGCTCGATG
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATC-GATCGATG
* * *
4770990 AGGTGATGGATCTCGGTGTCAAAGTGGAGAATCGATTCGATG
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCGA-TCGATG
4771032 A
1 A
4771033 AAAAGTGGGA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
39 31 0.43
40 1 0.01
41 3 0.04
42 37 0.51
ACGTcount: A:0.23, C:0.12, G:0.39, T:0.27
Consensus pattern (41 bp):
AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCGATCGATG
Found at i:4772797 original size:27 final size:27
Alignment explanation
Indices: 4772767--4772833 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
4772757 GATGGACTGT
* *
4772767 GTTGCGATTTAGGAGTTTAGGTTATGA
1 GTTGCGATTTAGGAGTATAGGTTATAA
*
4772794 GTTGCGATTTAGGAGTATATGTTATAA
1 GTTGCGATTTAGGAGTATAGGTTATAA
*
4772821 GTTGTGATTTAGG
1 GTTGCGATTTAGG
4772834 GTAGTTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.24, C:0.03, G:0.31, T:0.42
Consensus pattern (27 bp):
GTTGCGATTTAGGAGTATAGGTTATAA
Found at i:4772903 original size:20 final size:20
Alignment explanation
Indices: 4772864--4773009 Score: 125
Period size: 20 Copynumber: 7.2 Consensus size: 20
4772854 ATTTGTGTTC
*
4772864 CGAAATT-AAAAGCTGAGTTG
1 CGAAATTGAAAATC-GAGTTG
* * *
4772884 CGAAATTTAAATTCGCGTTG
1 CGAAATTGAAAATCGAGTTG
4772904 C-AAATTCGAAAATCGAGTTG
1 CGAAATT-GAAAATCGAGTTG
* * *
4772924 CGAAAATGAAATTCGTGTTG
1 CGAAATTGAAAATCGAGTTG
* * *
4772944 TGAAATTGAAACTCGTGTTG
1 CGAAATTGAAAATCGAGTTG
* *
4772964 CGAATTTAAAAATCGAGTTG
1 CGAAATTGAAAATCGAGTTG
*
4772984 CGAAATTGTCAAACTCGAGTTG
1 CGAAATTG--AAAATCGAGTTG
4773006 CGAA
1 CGAA
4773010 TTCGACTTCT
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
19 5 0.05
20 73 0.72
21 8 0.08
22 15 0.15
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (20 bp):
CGAAATTGAAAATCGAGTTG
Found at i:4772928 original size:60 final size:60
Alignment explanation
Indices: 4772864--4773009 Score: 150
Period size: 60 Copynumber: 2.4 Consensus size: 60
4772854 ATTTGTGTTC
* * *
4772864 CGAAATTAAAAGCT-GAGTTGCGAAATTTAAATTCGCGTTGCAAATTCGAAAATCGAGTTG
1 CGAAATTAAAA-CTCGAGTTGCGAAATTGAAACTCGCGTTGCAAATTCAAAAATCGAGTTG
* * * * * * * *
4772924 CGAAAATGAAATTCGTGTTGTGAAATTGAAACTCGTGTTGCGAATTTAAAAATCGAGTTG
1 CGAAATTAAAACTCGAGTTGCGAAATTGAAACTCGCGTTGCAAATTCAAAAATCGAGTTG
*
4772984 CGAAATTGTCAAACTCGAGTTGCGAA
1 CGAAA-T-TAAAACTCGAGTTGCGAA
4773010 TTCGACTTCT
Statistics
Matches: 67, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
59 1 0.01
60 52 0.78
62 14 0.21
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (60 bp):
CGAAATTAAAACTCGAGTTGCGAAATTGAAACTCGCGTTGCAAATTCAAAAATCGAGTTG
Found at i:4773043 original size:20 final size:20
Alignment explanation
Indices: 4773020--4773072 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
4773010 TTCGACTTCT
4773020 GTGTTGCGAATTCGGAAACA
1 GTGTTGCGAATTCGGAAACA
* * **
4773040 GTGTTGTGAAATC-GAAATT
1 GTGTTGCGAATTCGGAAACA
*
4773059 GAGTTGCGAATTCG
1 GTGTTGCGAATTCG
4773073 TTGGTTATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.30
Consensus pattern (20 bp):
GTGTTGCGAATTCGGAAACA
Found at i:4774085 original size:65 final size:65
Alignment explanation
Indices: 4773931--4774087 Score: 169
Period size: 65 Copynumber: 2.4 Consensus size: 65
4773921 AAATAGCTAG
* * *
4773931 AGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATAAGATGTTTTTATAAAATCCTC
1 AGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATGCATAAGATGTTATTATAAAATCATC
* * ** *
4773996 AGTGCATCGGTGCATGGTAT-GTGCATCGATGCATGAAATGCATTTGATGTTCAATT-T-AATTC
1 AGTGCATCGATGCATGGT-TGGTGCATCGATGCATCAAATGCATAAGATGTT--ATTATAAAATC
4774058 AT-
63 ATC
*
4774060 GGTGCATCGATGCATGGATTGGTGCATC
1 AGTGCATCGATGCATGG-TTGGTGCATC
4774088 ACTCTGAAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
64 16 0.21
65 57 0.74
66 2 0.03
67 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (65 bp):
AGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATGCATAAGATGTTATTATAAAATCATC
Found at i:4780630 original size:22 final size:21
Alignment explanation
Indices: 4780588--4780627 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4780578 GAGTTTATTT
*
4780588 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4780609 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4780628 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4782583 original size:45 final size:46
Alignment explanation
Indices: 4782519--4782626 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 46
4782509 CGGTGCACTA
* *
4782519 AGAGTGCATCGATGCATCAAGTGCATTTGATG-TTTCA-AAATATCC
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCC
4782564 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCC
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCC
** *
4782610 TCAGTGCATCGGTGCAT
1 AGAGTGCATCGATGCAT
4782627 GGTATGTGCA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
45 30 0.54
46 23 0.41
47 3 0.05
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (46 bp):
AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCC
Found at i:4782703 original size:65 final size:63
Alignment explanation
Indices: 4782567--4782692 Score: 157
Period size: 65 Copynumber: 2.0 Consensus size: 63
4782557 AATATCCAGA
*
4782567 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGTAT
* **
4782632 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG
4782693 ATTGGTGCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
62 3 0.06
63 3 0.06
64 20 0.37
65 28 0.52
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTAT
Found at i:4786318 original size:28 final size:28
Alignment explanation
Indices: 4786287--4786343 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
4786277 ATAAATAAAT
4786287 AATAAATAT-GTAGATCACATTAGCTATA
1 AATAAATATCGTAGATCACA-TAGCTATA
* * *
4786315 AATATATCTCGTAGATCACATAGTTATA
1 AATAAATATCGTAGATCACATAGCTATA
4786343 A
1 A
4786344 CGGTGAGCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (28 bp):
AATAAATATCGTAGATCACATAGCTATA
Found at i:4787065 original size:19 final size:20
Alignment explanation
Indices: 4787020--4787071 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
4787010 AACTCACCCA
4787020 CTTCTTCTTCTCCAGGTTATTT
1 CTTCTTCTTCTCCA-G-TATTT
* *
4787042 TTTCTTCTTCTCCA-TGTTT
1 CTTCTTCTTCTCCAGTATTT
4787061 CTTCTTCTTCT
1 CTTCTTCTTCT
4787072 AAGTAACCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 14 0.52
22 13 0.48
ACGTcount: A:0.06, C:0.29, G:0.06, T:0.60
Consensus pattern (20 bp):
CTTCTTCTTCTCCAGTATTT
Found at i:4787068 original size:22 final size:22
Alignment explanation
Indices: 4787020--4787071 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
4787010 AACTCACCCA
4787020 CTTCTTCTTCTCCAGGTTATTT
1 CTTCTTCTTCTCCAGGTTATTT
* *
4787042 TTTCTTCTTCTCCATGTT-TCTT
1 CTTCTTCTTCTCCAGGTTAT-TT
4787064 CTTCTTCT
1 CTTCTTCT
4787072 AAGTAACCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.06, C:0.29, G:0.06, T:0.60
Consensus pattern (22 bp):
CTTCTTCTTCTCCAGGTTATTT
Found at i:4789503 original size:147 final size:147
Alignment explanation
Indices: 4789258--4789526 Score: 369
Period size: 147 Copynumber: 1.8 Consensus size: 147
4789248 TTCAGTTCGG
* ***
4789258 CATTTCGTCGAACAGTGGAGATGCAGAAAATGTTGTTAAGGAAGATAACCTGATATCTGAACTTA
1 CATTTCATCGAACAGTGGAGATGCAGAAAATGCAATTAAGGAAGATAACCTGATATCTGAACTTA
** ** *
4789323 AAGAGGAGGTTACTGAAGTGGATGATTCAGGGGTTGCGGAAGATAAAGTTAATGTAGTCAAGTCA
66 AAGAAAAGGTTACCAAAATGGATGATTCAGGGGTTGCGGAAGATAAAGTTAATGTAGTCAAGTCA
4789388 ACAGTAGTTCGGTCTGA
131 ACAGTAGTTCGGTCTGA
* * *
4789405 CATTTCATCGAACATTGGAGATGCAGAAAATGCAATTAAGGTAGATAACCTGACT-TCTGAATTT
1 CATTTCATCGAACAGTGGAGATGCAGAAAATGCAATTAAGGAAGATAACCTGA-TATCTGAACTT
* * ** *
4789469 AAGGAAAAGGTTACCAAAATGGATGATTCTGGGGTTTTGGAAGATAAAGTTGATGTAG
65 AAAGAAAAGGTTACCAAAATGGATGATTCAGGGGTTGCGGAAGATAAAGTTAATGTAG
4789527 AACAGAAAGT
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
147 103 0.99
148 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.28
Consensus pattern (147 bp):
CATTTCATCGAACAGTGGAGATGCAGAAAATGCAATTAAGGAAGATAACCTGATATCTGAACTTA
AAGAAAAGGTTACCAAAATGGATGATTCAGGGGTTGCGGAAGATAAAGTTAATGTAGTCAAGTCA
ACAGTAGTTCGGTCTGA
Found at i:4800224 original size:130 final size:132
Alignment explanation
Indices: 4799983--4800242 Score: 332
Period size: 130 Copynumber: 2.0 Consensus size: 132
4799973 CATCACCAAG
* *
4799983 TACATCAAAAAAATAATATTAAGAACTGCAGCAAAATATGCCTAAGTGTACACAGACACACCACA
1 TACATCAAAAAAAGAATATTAAGAACTGCAGCAAAATATGCCTAAGTGCACACAGACACACCACA
*
4800048 AAACAAATTGAACACTGAAAGAAATTCAAGTGTTCATAAAATTCAAACACAAGCCATGATTGTTA
66 AAACAAATTAAACACTGAAAGAAATTCAAGTGTTCATAAAATTCAAACACAAGCCATGATTGTTA
4800113 AC
131 AC
* * * * *
4800115 TACATC-AAAAAAGAATATTAAGAATTG-AGGCAAAATAT-TCTACGTGCACACAGACATACCAG
1 TACATCAAAAAAAGAATATTAAGAACTGCA-GCAAAATATGCCTAAGTGCACACAGACACACCAC
* *** * *
4800177 AAAACACATTAAATGTTGAAAGAAATT-TAG-GCTCTCATAAAATTCAAAGACAAGCCATGATTG
65 AAAACAAATTAAACACTGAAAGAAATTCAAGTG-T-TCATAAAATTCAAACACAAGCCATGATTG
4800240 TTA
128 TTA
4800243 CAATAAAGAT
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
128 1 0.01
129 3 0.03
130 73 0.66
131 28 0.25
132 6 0.05
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (132 bp):
TACATCAAAAAAAGAATATTAAGAACTGCAGCAAAATATGCCTAAGTGCACACAGACACACCACA
AAACAAATTAAACACTGAAAGAAATTCAAGTGTTCATAAAATTCAAACACAAGCCATGATTGTTA
AC
Found at i:4817094 original size:22 final size:22
Alignment explanation
Indices: 4817069--4817112 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
4817059 CCTGTATATG
4817069 GGAATTAAATCTCCAAATGAGA
1 GGAATTAAATCTCCAAATGAGA
4817091 GGAATTAAATCTCCAAATGAGA
1 GGAATTAAATCTCCAAATGAGA
4817113 AGTGGGCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (22 bp):
GGAATTAAATCTCCAAATGAGA
Found at i:4822706 original size:17 final size:17
Alignment explanation
Indices: 4822686--4822726 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
4822676 ATAAATCATA
4822686 AAGTCACATAACATTTG
1 AAGTCACATAACATTTG
4822703 AAGTCACATAACATTTG
1 AAGTCACATAACATTTG
4822720 AAGTCAC
1 AAGTCAC
4822727 TTCTTACCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (17 bp):
AAGTCACATAACATTTG
Found at i:4827136 original size:20 final size:20
Alignment explanation
Indices: 4827098--4827135 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4827088 CCGTTAAACA
4827098 GGGGGGAATCGGTATCCCCT
1 GGGGGGAATCGGTATCCCCT
4827118 GGGGGGAATCGGT-TCCCC
1 GGGGGGAATCGGTATCCCC
4827136 CCGAGCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.13, C:0.26, G:0.42, T:0.18
Consensus pattern (20 bp):
GGGGGGAATCGGTATCCCCT
Found at i:4827215 original size:22 final size:22
Alignment explanation
Indices: 4827171--4827216 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4827161 CAAACCATTC
*
4827171 AGGGGGGAATCGGTACCCCCTT
1 AGGGGGGAATCGATACCCCCTT
* *
4827193 AGGGGGGAATCGATTCCCTCTT
1 AGGGGGGAATCGATACCCCCTT
4827215 AG
1 AG
4827217 CAATCTGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.24, G:0.35, T:0.22
Consensus pattern (22 bp):
AGGGGGGAATCGATACCCCCTT
Found at i:4829315 original size:20 final size:20
Alignment explanation
Indices: 4829235--4829317 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
4829225 CTAGAACCCC
* *
4829235 ATGGGGGTATCGATTCCCCT
1 ATGGGGGAATCGATTCCCTT
4829255 ATAGGGGGAATC-AGTTCCCATT
1 AT-GGGGGAATCGA-TTCCC-TT
* * *
4829277 CAAAGGGGGAATTGGTTCCCTT
1 --ATGGGGGAATCGATTCCCTT
*
4829299 ATGGGGGTATCGATTCCCT
1 ATGGGGGAATCGATTCCCT
4829318 CTGCCAAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
20 18 0.38
21 13 0.27
22 3 0.06
23 13 0.27
24 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (20 bp):
ATGGGGGAATCGATTCCCTT
Found at i:4834155 original size:26 final size:25
Alignment explanation
Indices: 4834111--4834159 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
4834101 AATAATAATA
4834111 ATATATATATAAACGTTTTCAAAAAC
1 ATATATATATAAACGTTTT-AAAAAC
*
4834137 ATATAATATATAAA-TTTTTAAAA
1 ATAT-ATATATAAACGTTTTAAAA
4834160 TGTTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 4 0.19
26 8 0.38
27 9 0.43
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (25 bp):
ATATATATATAAACGTTTTAAAAAC
Found at i:4834222 original size:38 final size:37
Alignment explanation
Indices: 4834121--4834515 Score: 187
Period size: 38 Copynumber: 10.1 Consensus size: 37
4834111 ATATATATAT
* * * *
4834121 AAACGTTTTCAAAAAC-ATATAATATATAAATTTTTA
1 AAACGTTTTTAAAAACTATATATTATATATATTTTCA
*
4834157 AAATGTTTTTTTAAAAAAACTATATATTATATATATTTTCA
1 AAACG--TTTTT--AAAAACTATATATTATATATATTTTCA
* * *
4834198 AAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCA
1 AAA-CGTTTTTAAAAACTATATATTATAT--ATATTTTCA
* * *
4834238 TAACG-TTTTCAAAAGTATATATTATATATATTTT-A
1 AAACGTTTTTAAAAACTATATATTATATATATTTTCA
*
4834273 AAACGTTTTCAAAAACTATATATTATATA-ATTTTCAAAAAA
1 AAACGTTTTTAAAAACTATATATTATATATATTTTC-----A
** * * **
4834314 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATA-AGTGTTTT
1 A-A-ACGTT----------TTTAAAAACTATATATTATATATA-TTTTCA
* * *
4834363 CATAACG-TTTTCAAAAGTATATATTATATATATTTTAA
1 -A-AACGTTTTTAAAAACTATATATTATATATATTTTCA
* *
4834401 AAACGTTTTCAAAAACTATATAATATATA-ATTTTCA
1 AAACGTTTTTAAAAACTATATATTATATATATTTTCA
** * *
4834437 AAAAATATTTTAAAAACTATATAATATACATATTTTCA
1 AAACGT-TTTTAAAAACTATATATTATATATATTTTCA
**
4834475 AAAAATGTTTT--AAACTATATATTATATATGTATTTTCA
1 AAACGT-TTTTAAAAACTATATATTATATA--TATTTTCA
4834513 AAA
1 AAA
4834516 ACAATTTGCA
Statistics
Matches: 281, Mismatches: 43, Indels: 68
0.72 0.11 0.17
Matches are distributed among these distances:
35 10 0.04
36 59 0.21
37 41 0.15
38 92 0.33
39 2 0.01
40 21 0.07
41 22 0.08
42 2 0.01
43 3 0.01
48 1 0.00
49 1 0.00
50 3 0.01
53 21 0.07
54 3 0.01
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (37 bp):
AAACGTTTTTAAAAACTATATATTATATATATTTTCA
Found at i:4834292 original size:25 final size:24
Alignment explanation
Indices: 4834263--4834346 Score: 62
Period size: 27 Copynumber: 3.2 Consensus size: 24
4834253 TATATATTAT
4834263 ATATATTTTAAAACGTTTTCAAAAA
1 ATATATTTTAAAA-GTTTTCAAAAA
* *
4834288 CTATATATTATATAA-TTTTCAAAAAA
1 --ATATATTTTAAAAGTTTTC-AAAAA
*
4834314 ATATATTTTCAAAATGGTTTTTAAAAA
1 ATATATTTT-AAAA--GTTTTCAAAAA
*
4834341 TTATAT
1 ATATAT
4834347 ATTATATAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
24 8 0.17
25 8 0.17
26 5 0.11
27 21 0.46
28 4 0.09
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (24 bp):
ATATATTTTAAAAGTTTTCAAAAA
Found at i:4834296 original size:27 final size:25
Alignment explanation
Indices: 4834261--4834349 Score: 81
Period size: 25 Copynumber: 3.4 Consensus size: 25
4834251 AGTATATATT
4834261 ATATATATTTTAAAACGTTTTCAAAA
1 ATATATATTTTAAAA-GTTTTCAAAA
* *
4834287 ACTATATATTATATAA-TTTTCAAAA
1 A-TATATATTTTAAAAGTTTTCAAAA
* *
4834312 AAATATATTTTCAAAATGGTTTTTAAAA
1 ATATATATTTT-AAAA--GTTTTCAAAA
4834340 ATTATATATT
1 A-TATATATT
4834350 ATATAAGTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
24 8 0.16
25 13 0.26
26 1 0.02
27 12 0.24
28 9 0.18
29 7 0.14
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (25 bp):
ATATATATTTTAAAAGTTTTCAAAA
Found at i:4834324 original size:127 final size:128
Alignment explanation
Indices: 4834187--4834441 Score: 485
Period size: 127 Copynumber: 2.0 Consensus size: 128
4834177 TATATATTAT
4834187 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
1 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
*
4834252 GTATATATTATATATATTTT-AAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAAA
66 GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATAATATATAATTTTCAAAAAA
*
4834314 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAGTGTTTTCATAACGTTTTCAAAA
1 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
4834379 GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATAATATATAATTTTCAAAAAA
66 GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATAATATATAATTTTCAAAAAA
4834442 TATTTTAAAA
Statistics
Matches: 125, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
127 84 0.67
128 41 0.33
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.44
Consensus pattern (128 bp):
ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATAATATATAATTTTCAAAAAA
Found at i:4834544 original size:39 final size:36
Alignment explanation
Indices: 4834375--4834542 Score: 153
Period size: 37 Copynumber: 4.5 Consensus size: 36
4834365 TAACGTTTTC
* * **
4834375 AAAAGTATATATTATATATATTTT-AAAAACGTTTTCA
1 AAAACTATATAATATATATATTTTCAAAAA-AATTT-A
4834412 AAAACTATATAATATATA-ATTTTCAAAAAATATTTTA
1 AAAACTATATAATATATATATTTTCAAAAAA-A-TTTA
* *
4834449 AAAACTATATAATATACATATTTTC-AAAAAATGTTT
1 AAAACTATATAATATATATATTTTCAAAAAAAT-TTA
* * *
4834485 TAAACTATATATTATATATGTATTTTCAAAAACAATTTG
1 AAAACTATATA--ATATATATATTTTCAAAAA-AATTTA
*
4834524 CAAACTATATAATATATAT
1 AAAACTATATAATATATAT
4834543 GTGTATATAT
Statistics
Matches: 110, Mismatches: 12, Indels: 18
0.79 0.09 0.13
Matches are distributed among these distances:
35 1 0.01
36 18 0.16
37 51 0.46
38 21 0.19
39 16 0.15
40 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (36 bp):
AAAACTATATAATATATATATTTTCAAAAAAATTTA
Found at i:4835292 original size:84 final size:84
Alignment explanation
Indices: 4835148--4835910 Score: 818
Period size: 84 Copynumber: 9.2 Consensus size: 84
4835138 TTGAATATAA
* * * *
4835148 TCGAACTCGAAGGTC--TT--TAGCAGATAGCCCTTCTCAACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
4835209 GCCTTGGAGCTGAGCGGAT
66 GCCTTGGAGCTGAGCGTAG
** * * * * *
4835228 TCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
4835293 GCCGTT-GAGCTGAGCGTAG
66 GCC-TTGGAGCTGAGCGTAG
* * * * * ** *
4835312 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTATTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
4835377 GCCTTGGAGCTGAGCGAAG
66 GCCTTGGAGCTGAGCGTAG
* *
4835396 TCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
4835461 GCCCTCGAAGCTGAGTGTAA
66 G-CCTTGGAGCTGAGCGTAG
* ** * * * * ** *
4835481 TCGAACTTGGGGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTATTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
4835546 GCCTTGGAGCTGAGCGAAG
66 GCCTTGGAGCTGAGCGTAG
*
4835565 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
4835630 GCCCTCGAAGCTGAGTGTAA
66 G-CCTTGGAGCTGAGCGTAG
* * ** * *
4835650 TCAAACTTGGGGGTC--TT--TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
4835711 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * *
4835730 TCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGTTAT
1 TCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * *
4835794 GCCCTTGAAGCTGAGTGTAA
66 G-CCTTGGAGCTGAGCGTAG
* * * *
4835814 TCGAACT-TAAGGGTC--TT--TGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATG
1 TCGAACTCGAA-GGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
4835874 TGCCTTGGAGCTGAGCGTAG
65 TGCCTTGGAGCTGAGCGTAG
*
4835894 TCGAACCCGAAGGTCTT
1 TCGAACTCGAAGGTCTT
4835911 AGTGGCAGGT
Statistics
Matches: 567, Mismatches: 100, Indels: 30
0.81 0.14 0.04
Matches are distributed among these distances:
80 65 0.11
81 85 0.15
82 2 0.00
83 47 0.08
84 273 0.48
85 95 0.17
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAG
Found at i:4835327 original size:164 final size:165
Alignment explanation
Indices: 4835145--4835910 Score: 955
Period size: 169 Copynumber: 4.6 Consensus size: 165
4835135 AAGTTGAATA
* * * *
4835145 TAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCAACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATACTGCAAATGATGTG
* * * * * *
4835210 CCTTGGAGCTGAGCGGATTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGAAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTCGACTTAAG
* * * * *
4835275 TTATGTTGTAAATGATGTGCCGTTG-AGCTGAGCG
131 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* ** * * * * * *
4835309 TAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCT-AGACTTAAGTTGTATTGCAAATG
1 TAATCGAACTTGAGGGTC---T-TTGGCAGATAGCCCTTCTCA-ACTTAAGCTATACTGCAAATG
* * * *
4835373 ATATGCCTTGGAGCTGAGCGAAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTCGAC
61 ATGTGCCTTGGAGCTGAGCGAAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTCGAC
4835438 TTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
126 TTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* * * * * *
4835478 TAATCGAACTTGGGGGTCTTTTGTTGGCAGACAACCCTTCT-AGACTTAAGTTGTATTGCAAATG
1 TAATCGAACTTGAGGGTC---T-TTGGCAGATAGCCCTTCTCA-ACTTAAGCTATACTGCAAATG
* * *
4835542 ATATGCCTTGGAGCTGAGCGAAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGAC
61 ATGTGCCTTGGAGCTGAGCGAAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTCGAC
4835607 TTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
126 TTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* * * *
4835647 TAATCAAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATACTGCAAATGATGTG
*
4835712 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTCGACTTAAG
66 CCTTGGAGCTGAGCGAAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTCGACTTAAG
* * * *
4835776 TTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTG
131 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* * *
4835811 TAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
1 TAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATACTGCAAATGATGTG
* *
4835876 CCTTGGAGCTGAGCGTAGTCGAACCCGAAGGTCTT
66 CCTTGGAGCTGAGCGAAGTCGAACTCGAAGGTCTT
4835911 AGTGGCAGGT
Statistics
Matches: 543, Mismatches: 51, Indels: 15
0.89 0.08 0.02
Matches are distributed among these distances:
164 169 0.31
165 70 0.13
166 1 0.00
167 2 0.00
168 113 0.21
169 188 0.35
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (165 bp):
TAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATACTGCAAATGATGTG
CCTTGGAGCTGAGCGAAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTCGACTTAAG
TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
Found at i:4839354 original size:18 final size:19
Alignment explanation
Indices: 4839313--4839357 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
4839303 AGTTAATGTG
4839313 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
4839332 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
4839350 AATGCAAA
1 AATGCAAA
4839358 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:4842112 original size:26 final size:25
Alignment explanation
Indices: 4842068--4842116 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
4842058 AATAATAATA
4842068 ATATATATATAAACGTTTTCAAAAAC
1 ATATATATATAAACGTTTT-AAAAAC
*
4842094 ATATAATATATAAA-TTTTTAAAA
1 ATAT-ATATATAAACGTTTTAAAA
4842117 TGTTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 4 0.19
26 8 0.38
27 9 0.43
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (25 bp):
ATATATATATAAACGTTTTAAAAAC
Found at i:4842179 original size:38 final size:37
Alignment explanation
Indices: 4842078--4842472 Score: 187
Period size: 38 Copynumber: 10.1 Consensus size: 37
4842068 ATATATATAT
* * * *
4842078 AAACGTTTTCAAAAAC-ATATAATATATAAATTTTTA
1 AAACGTTTTTAAAAACTATATATTATATATATTTTCA
*
4842114 AAATGTTTTTTTAAAAAAACTATATATTATATATATTTTCA
1 AAACG--TTTTT--AAAAACTATATATTATATATATTTTCA
* * *
4842155 AAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCA
1 AAA-CGTTTTTAAAAACTATATATTATAT--ATATTTTCA
* * *
4842195 TAACG-TTTTCAAAAGTATATATTATATATATTTT-A
1 AAACGTTTTTAAAAACTATATATTATATATATTTTCA
*
4842230 AAACGTTTTCAAAAACTATATATTATATA-ATTTTCAAAAAA
1 AAACGTTTTTAAAAACTATATATTATATATATTTTC-----A
** * * **
4842271 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATA-AGTGTTTT
1 A-A-ACGTT----------TTTAAAAACTATATATTATATATA-TTTTCA
* * *
4842320 CATAACG-TTTTCAAAAGTATATATTATATATATTTTAA
1 -A-AACGTTTTTAAAAACTATATATTATATATATTTTCA
* *
4842358 AAACGTTTTCAAAAACTATATAATATATA-ATTTTCA
1 AAACGTTTTTAAAAACTATATATTATATATATTTTCA
** * *
4842394 AAAAATATTTTAAAAACTATATAATATACATATTTTCA
1 AAACGT-TTTTAAAAACTATATATTATATATATTTTCA
**
4842432 AAAAATGTTTT--AAACTATATATTATATATGTATTTTCA
1 AAACGT-TTTTAAAAACTATATATTATATA--TATTTTCA
4842470 AAA
1 AAA
4842473 ACAATTTGCA
Statistics
Matches: 281, Mismatches: 43, Indels: 68
0.72 0.11 0.17
Matches are distributed among these distances:
35 10 0.04
36 59 0.21
37 41 0.15
38 92 0.33
39 2 0.01
40 21 0.07
41 22 0.08
42 2 0.01
43 3 0.01
48 1 0.00
49 1 0.00
50 3 0.01
53 21 0.07
54 3 0.01
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (37 bp):
AAACGTTTTTAAAAACTATATATTATATATATTTTCA
Found at i:4842249 original size:25 final size:24
Alignment explanation
Indices: 4842220--4842303 Score: 62
Period size: 27 Copynumber: 3.2 Consensus size: 24
4842210 TATATATTAT
4842220 ATATATTTTAAAACGTTTTCAAAAA
1 ATATATTTTAAAA-GTTTTCAAAAA
* *
4842245 CTATATATTATATAA-TTTTCAAAAAA
1 --ATATATTTTAAAAGTTTTC-AAAAA
*
4842271 ATATATTTTCAAAATGGTTTTTAAAAA
1 ATATATTTT-AAAA--GTTTTCAAAAA
*
4842298 TTATAT
1 ATATAT
4842304 ATTATATAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
24 8 0.17
25 8 0.17
26 5 0.11
27 21 0.46
28 4 0.09
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (24 bp):
ATATATTTTAAAAGTTTTCAAAAA
Found at i:4842253 original size:27 final size:25
Alignment explanation
Indices: 4842218--4842306 Score: 81
Period size: 25 Copynumber: 3.4 Consensus size: 25
4842208 AGTATATATT
4842218 ATATATATTTTAAAACGTTTTCAAAA
1 ATATATATTTTAAAA-GTTTTCAAAA
* *
4842244 ACTATATATTATATAA-TTTTCAAAA
1 A-TATATATTTTAAAAGTTTTCAAAA
* *
4842269 AAATATATTTTCAAAATGGTTTTTAAAA
1 ATATATATTTT-AAAA--GTTTTCAAAA
4842297 ATTATATATT
1 A-TATATATT
4842307 ATATAAGTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
24 8 0.16
25 13 0.26
26 1 0.02
27 12 0.24
28 9 0.18
29 7 0.14
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (25 bp):
ATATATATTTTAAAAGTTTTCAAAA
Found at i:4842281 original size:127 final size:128
Alignment explanation
Indices: 4842144--4842398 Score: 485
Period size: 127 Copynumber: 2.0 Consensus size: 128
4842134 TATATATTAT
4842144 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
1 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
*
4842209 GTATATATTATATATATTTT-AAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAAA
66 GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATAATATATAATTTTCAAAAAA
*
4842271 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAGTGTTTTCATAACGTTTTCAAAA
1 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
4842336 GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATAATATATAATTTTCAAAAAA
66 GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATAATATATAATTTTCAAAAAA
4842399 TATTTTAAAA
Statistics
Matches: 125, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
127 84 0.67
128 41 0.33
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.44
Consensus pattern (128 bp):
ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATAATATATAATTTTCAAAAAA
Found at i:4842501 original size:39 final size:36
Alignment explanation
Indices: 4842332--4842499 Score: 153
Period size: 37 Copynumber: 4.5 Consensus size: 36
4842322 TAACGTTTTC
* * **
4842332 AAAAGTATATATTATATATATTTT-AAAAACGTTTTCA
1 AAAACTATATAATATATATATTTTCAAAAA-AATTT-A
4842369 AAAACTATATAATATATA-ATTTTCAAAAAATATTTTA
1 AAAACTATATAATATATATATTTTCAAAAAA-A-TTTA
* *
4842406 AAAACTATATAATATACATATTTTC-AAAAAATGTTT
1 AAAACTATATAATATATATATTTTCAAAAAAAT-TTA
* * *
4842442 TAAACTATATATTATATATGTATTTTCAAAAACAATTTG
1 AAAACTATATA--ATATATATATTTTCAAAAA-AATTTA
*
4842481 CAAACTATATAATATATAT
1 AAAACTATATAATATATAT
4842500 GTGTATATAT
Statistics
Matches: 110, Mismatches: 12, Indels: 18
0.79 0.09 0.13
Matches are distributed among these distances:
35 1 0.01
36 18 0.16
37 51 0.46
38 21 0.19
39 16 0.15
40 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (36 bp):
AAAACTATATAATATATATATTTTCAAAAAAATTTA
Found at i:4851204 original size:11 final size:11
Alignment explanation
Indices: 4851188--4851217 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4851178 TTCTTTTCAT
*
4851188 TTTATTTGTTG
1 TTTATTTATTG
4851199 TTTATTTATTG
1 TTTATTTATTG
4851210 TTTATTTA
1 TTTATTTA
4851218 CCATTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (11 bp):
TTTATTTATTG
Found at i:4862796 original size:17 final size:20
Alignment explanation
Indices: 4862756--4862797 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
4862746 GTTACAAGAC
4862756 AAATGTACATAAAATATTAAT
1 AAATGTACATAAAATATT-AT
4862777 AAATGTA-A-AAAATATT-T
1 AAATGTACATAAAATATTAT
4862794 AAAT
1 AAAT
4862798 TGTTAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.24
19 8 0.38
20 1 0.05
21 7 0.33
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATGTACATAAAATATTAT
Found at i:4864316 original size:24 final size:25
Alignment explanation
Indices: 4864289--4864338 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
4864279 ACAGAGATTA
4864289 TTATCAT-GTTATATCTAAAC-AAAT
1 TTATCATAG-TATATCTAAACTAAAT
*
4864313 TTATTATAGTATATCTAAACTAAAT
1 TTATCATAGTATATCTAAACTAAAT
4864338 T
1 T
4864339 CATACATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (25 bp):
TTATCATAGTATATCTAAACTAAAT
Found at i:4866991 original size:37 final size:36
Alignment explanation
Indices: 4866932--4867051 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
4866922 ATCCCATTAT
* *
4866932 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
4866968 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
4867004 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
4867039 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
4867052 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:4867007 original size:21 final size:21
Alignment explanation
Indices: 4866983--4867043 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
4866973 TTCAAAGAAA
4866983 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
4867004 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
4867018 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
4867039 CATTT
1 CATTT
4867044 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:4867060 original size:35 final size:36
Alignment explanation
Indices: 4866934--4867078 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
4866924 CCCATTATCA
*
4866934 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
4866969 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
4867006 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
4867042 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
4867076 TTT
1 TTT
4867079 AATACTTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Done.