Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007267.1 Hibiscus syriacus cultivar Beakdansim tig00019267_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: 245752
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:4294 original size:24 final size:23
Alignment explanation
Indices: 4267--4347 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
4257 ACACTTAACA
4267 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCAT-CCTTTGAAT
* *
4291 GTGCATCGATTCATCATGTTG-A-
1 GTGCATCGATGCATCCT-TTGAAT
4313 -TGCA-CTGATGCATGCC-TTGAAT
1 GTGCATC-GATGCAT-CCTTTGAAT
4335 GTGCATCGATGCA
1 GTGCATCGATGCA
4348 CATGGTCATG
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
20 4 0.09
21 11 0.24
22 1 0.02
23 13 0.28
24 17 0.37
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.32
Consensus pattern (23 bp):
GTGCATCGATGCATCCTTTGAAT
Found at i:5921 original size:21 final size:21
Alignment explanation
Indices: 5879--5922 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
5869 ACTCCGGGAG
* *
5879 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
5900 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
5921 CT
1 CT
5923 CCTCCAGTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:6482 original size:2 final size:2
Alignment explanation
Indices: 6475--6505 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6465 CAGCTTAAGC
*
6475 TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6506 TTAATCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7087 original size:65 final size:63
Alignment explanation
Indices: 7018--7177 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 63
7008 AAATAAATTG
* *
7018 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCAATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCACCAATGCACTCAGGATATTT-TG-
7082 A
63 A
* * * * *
7083 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCACCAATGCACTCAGGATATTTTGA
*
7147 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
7178 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 1 0.01
64 30 0.35
65 49 0.58
66 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCACCAATGCACTCAGGATATTTTGA
Found at i:7177 original size:17 final size:19
Alignment explanation
Indices: 7149--7197 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
7139 TATTTTGAAA
7149 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
7167 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
7186 CACCGATGCACT
1 CATCGATGCACT
7198 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:7193 original size:64 final size:63
Alignment explanation
Indices: 7018--7197 Score: 188
Period size: 65 Copynumber: 2.8 Consensus size: 63
7008 AAATAAATTG
* * *
7018 AACATCGAATGCATTTCATGCATCGATGCACATACCA-TGCACCAATGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCAC-T--CAGTGCACCGATGCACTCAGGATTTTATGA
7082 A
63 A
* * *
7083 AACATCGAATGCATTTGATGCATCGATGCAC-CAGCCATGCATCGATGCACTCTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCACTCAG---TGCACCGATGCACTCAGGAT-TTTATG
7146 -A
62 AA
*
7147 AACATCGAATGCACTTGATGCATCGATGCACTCTTAGTGCACCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCACTC--AGTGCACCGATGCACT
7198 AAGGGTCCAA
Statistics
Matches: 99, Mismatches: 8, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
61 2 0.02
64 44 0.44
65 48 0.48
66 3 0.03
67 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCAGTGCACCGATGCACTCAGGATTTTATGAA
Found at i:13012 original size:24 final size:23
Alignment explanation
Indices: 12985--13065 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
12975 ACACTTAACA
12985 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCAT-CCTTTGAAT
* *
13009 GTGCATCGATTCATCATGTTG-A-
1 GTGCATCGATGCATCCT-TTGAAT
13031 -TGCA-CTGATGCATGCC-TTGAAT
1 GTGCATC-GATGCAT-CCTTTGAAT
13053 GTGCATCGATGCA
1 GTGCATCGATGCA
13066 CATGGTCATG
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
20 4 0.09
21 11 0.24
22 1 0.02
23 13 0.28
24 17 0.37
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.32
Consensus pattern (23 bp):
GTGCATCGATGCATCCTTTGAAT
Found at i:15204 original size:2 final size:2
Alignment explanation
Indices: 15197--15230 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15187 CTTAAGCTAA
15197 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
15231 TTAATCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15812 original size:65 final size:63
Alignment explanation
Indices: 15743--15902 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 63
15733 AAATAAATTG
* * *
15743 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCAATGCACTGAGG-ATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCACCAATGCACTCAGGCAATTT-TG-
15807 A
63 A
* * * *
15808 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCAATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCACCAATGCACTCAGGCAATTTTGA
*
15872 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
15903 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 1 0.01
64 30 0.35
65 48 0.56
66 6 0.07
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCACCAATGCACTCAGGCAATTTTGA
Found at i:15902 original size:17 final size:19
Alignment explanation
Indices: 15874--15922 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
15864 AATTTTGAAA
15874 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
15892 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
15911 CACCGATGCACT
1 CATCGATGCACT
15923 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:15918 original size:64 final size:63
Alignment explanation
Indices: 15743--15922 Score: 188
Period size: 65 Copynumber: 2.8 Consensus size: 63
15733 AAATAAATTG
* * * *
15743 AACATCGAATGCATTTCATGCATCGATGCACATACCA-TGCACCAATGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCAC-T--CAGTGCACCGATGCACTCAGGAATTTATGA
15807 A
63 A
* *
15808 AACATCGAATGCATTTGATGCATCGATGCAC-CAGCCATGCATCGATGCACTCTGGCAATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCACTCAG---TGCACCGATGCACTCAGG-AATTTATG
15871 -A
62 AA
*
15872 AACATCGAATGCACTTGATGCATCGATGCACTCTTAGTGCACCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCACTC--AGTGCACCGATGCACT
15923 AAGGGTCCAA
Statistics
Matches: 99, Mismatches: 8, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
61 2 0.02
64 44 0.44
65 47 0.47
66 4 0.04
67 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCAGTGCACCGATGCACTCAGGAATTTATGAA
Found at i:21420 original size:90 final size:90
Alignment explanation
Indices: 21263--21438 Score: 237
Period size: 90 Copynumber: 2.0 Consensus size: 90
21253 GTAGACTCAG
* * * * * *
21263 ATGAAGAAGCTGAAGCTGAGAGGGAACAAGAAGCTAAAGAGCTACTGGATTCTGCTGCATTGGCT
1 ATGAAGAAGCCGAAGCTGAGAGGAAACAAGAAGCAAAAGAGCTACTAGATTCTACTACATTGGCT
*
21328 GCTCTTTTGAAAGTTGCAGCAAGAT
66 GCTCTTTTGAAAGCTGCAGCAAGAT
* * * *
21353 ATGAAGAAGCCGAAGCTGAGAGGAAATATGAAGCAAAAGAGCTACTCAG-TTCTACTATATTGTC
1 ATGAAGAAGCCGAAGCTGAGAGGAAACAAGAAGCAAAAGAGCTACT-AGATTCTACTACATTGGC
21417 TGCTCTTTTGAAAGCTGCAGCA
65 TGCTCTTTTGAAAGCTGCAGCA
21439 GGTGGCGGAT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
90 73 0.99
91 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (90 bp):
ATGAAGAAGCCGAAGCTGAGAGGAAACAAGAAGCAAAAGAGCTACTAGATTCTACTACATTGGCT
GCTCTTTTGAAAGCTGCAGCAAGAT
Found at i:22484 original size:34 final size:34
Alignment explanation
Indices: 22390--22480 Score: 109
Period size: 33 Copynumber: 2.8 Consensus size: 34
22380 AAACATGAAA
* *
22390 AATAAGTTGGCCACCTACCAA-A--GATTTTTCC
1 AATAAGTTGGCCACCAACCAAGATTAATTTTTCC
*
22421 AATGAGTTGGCCACCAACCAAGATTAATTTTT-C
1 AATAAGTTGGCCACCAACCAAGATTAATTTTTCC
**
22454 AATAAGTTTTCCACCAACCAAGATTAA
1 AATAAGTTGGCCACCAACCAAGATTAA
22481 ATTTCTAATC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
31 19 0.37
32 1 0.02
33 25 0.49
34 6 0.12
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (34 bp):
AATAAGTTGGCCACCAACCAAGATTAATTTTTCC
Found at i:28256 original size:64 final size:63
Alignment explanation
Indices: 28099--28318 Score: 343
Period size: 64 Copynumber: 3.5 Consensus size: 63
28089 AGGTTTTATA
* *
28099 TTTAATTTTATATTATAGATATTAATTTTAATATTAA-TTTTTAAATAAATTAAATATTAAAT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
* * * * *
28161 ATTAATATTATATTATAAAAATTAATTTTAATCTAAATTTTTTAAATAAATTAAATATTAATTT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAA-TT
*
28225 TTTAATATTATACTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
28288 TTTAATATTATATTATAGATATTTAATTTTA
1 TTTAATATTATATTATAGATA-TTAATTTTA
28319 TATCATATAA
Statistics
Matches: 141, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
62 31 0.22
63 45 0.32
64 65 0.46
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (63 bp):
TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
Found at i:28261 original size:40 final size:37
Alignment explanation
Indices: 28214--28297 Score: 107
Period size: 40 Copynumber: 2.2 Consensus size: 37
28204 AAATAAATTA
* *
28214 AATATTAATTTTTTAATATTATACTATAGATATTAA-TTTT
1 AATATTAATTTTTTAA-A-TA-AAT-TAAATATTAATTTTT
28254 AATATTAATTTTTTAAATAAATTAAATATTAATTTTT
1 AATATTAATTTTTTAAATAAATTAAATATTAATTTTT
28291 AATATTA
1 AATATTA
28298 TATTATAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
36 9 0.22
37 13 0.32
38 2 0.05
39 1 0.02
40 16 0.39
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (37 bp):
AATATTAATTTTTTAAATAAATTAAATATTAATTTTT
Found at i:28377 original size:127 final size:122
Alignment explanation
Indices: 28092--28379 Score: 307
Period size: 127 Copynumber: 2.3 Consensus size: 122
28082 TTCAAAAAGG
28092 TTTTATATTTAATTTTATATTATAGATATTAATTTTAATATTAATTTTTAAATAAATTAAATATT
1 TTTTATATTTAATTTTATATTAT---T-TTAATTTTAATATTAATTTTTAAATAAATTAAATATT
28157 AAATATTAATATTATATTATAAAAATTAATTTTAATCTAAATTTTTTAAATAAATTAAATA
62 AAATATTAATATTATATTATAAAAATTAATTTTAATCTAAATTTTTTAAATAAATTAAATA
* *
28218 TTAATT-T-TTTAATATTATACTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAAT
1 TT--TTATATTTAAT-TT-TA-TAT-TATTTTAATTTTAATATTAA-TTTTTAAATAAATTAAAT
* * * * * *
28281 ATTAATTTTTAATATTATATTATAGATATTTAATTTTATATCATATAAATTATTTTATATATTAT
59 ATTAAATATTAATATTATATTATA-AAAATTAATTTTA-ATC---TAAATT-TTTTAAATA-AAT
28346 TAAA-A
117 TAAATA
28351 TTTTATATTT-ATTTTA-ATTATTTTAATTT
1 TTTTATATTTAATTTTATATTATTTTAATTT
28380 AAGTTTAAAT
Statistics
Matches: 136, Mismatches: 10, Indels: 31
0.77 0.06 0.18
Matches are distributed among these distances:
126 24 0.18
127 52 0.38
128 17 0.12
129 6 0.04
130 4 0.03
131 4 0.03
132 9 0.07
133 14 0.10
134 6 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (122 bp):
TTTTATATTTAATTTTATATTATTTTAATTTTAATATTAATTTTTAAATAAATTAAATATTAAAT
ATTAATATTATATTATAAAAATTAATTTTAATCTAAATTTTTTAAATAAATTAAATA
Found at i:28386 original size:20 final size:20
Alignment explanation
Indices: 28328--28387 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
28318 ATATCATATA
28328 AATTATTTTATATATTA--TT
1 AATTATTTTATAT-TTAGTTT
* *
28347 AA-AATTTTATATTTATTTT
1 AATTATTTTATATTTAGTTT
28366 AATTATTTTA-ATTTAAGTTT
1 AATTATTTTATATTT-AGTTT
28386 AA
1 AA
28388 ATATAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 3 0.09
18 9 0.26
19 10 0.29
20 12 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
AATTATTTTATATTTAGTTT
Found at i:28982 original size:31 final size:31
Alignment explanation
Indices: 28924--28983 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
28914 TAGTTGTATG
* *
28924 AATTATTTAAATTTCAGTATTATAAAACTAA
1 AATTATTTAAATCTCAGTATTACAAAACTAA
*
28955 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTACAAAACT
28984 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTACAAAACTAA
Found at i:30338 original size:3 final size:3
Alignment explanation
Indices: 30332--30364 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
30322 CCACTCAAAC
30332 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30365 GAATCATGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:31563 original size:31 final size:29
Alignment explanation
Indices: 31517--31575 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
31507 TAAGTTCGTT
*
31517 AAAATTTTGCTCGACTCATGCTTGTTAAA
1 AAAATTTTGCTCGACTCATGCTCGTTAAA
*
31546 AAAATTTGTAGCTCGACTCGTGCTCGTTAA
1 AAAATTT-T-GCTCGACTCATGCTCGTTAA
31576 GCTCGTTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 7 0.27
30 1 0.04
31 18 0.69
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (29 bp):
AAAATTTTGCTCGACTCATGCTCGTTAAA
Found at i:31583 original size:66 final size:67
Alignment explanation
Indices: 31458--31583 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 67
31448 GTTAGGCAGA
* *
31458 GCTCAACTCATGCTCGATAAAAAACTTTGTTACTCGACTCGTTGCTCGTTAAGTTCGTTAAAATT
1 GCTCAACTCATGCTCGATAAAAAAATTTGTTACTCGACTCGTTGCTCGTTAAGCTCGTTAAAATT
31523 TT
66 TT
* * *
31525 GCTCGACTCATGCTTGTTAAAAAAATTTG-TAGCTCGACTCG-TGCTCGTTAAGCTCGTTA
1 GCTCAACTCATGCTCGATAAAAAAATTTGTTA-CTCGACTCGTTGCTCGTTAAGCTCGTTA
31584 CTCGTCTCGT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
66 19 0.36
67 34 0.64
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (67 bp):
GCTCAACTCATGCTCGATAAAAAAATTTGTTACTCGACTCGTTGCTCGTTAAGCTCGTTAAAATT
TT
Found at i:32522 original size:59 final size:60
Alignment explanation
Indices: 32453--32601 Score: 155
Period size: 60 Copynumber: 2.5 Consensus size: 60
32443 TACTCTATCT
* *
32453 AGAATATCATATACTTAATATGACTT-C-TTCCTCA-TTTTAGCACACGAAGTGCCCTATGCG
1 AGAAT-TCATATACTTAATATGA-TTCCTTTAC-CATTTTTAGCACACGAAGTGCCCTATACG
* * *
32513 AGAATTCATAT-CATTAGTATGATTCCTTTACCATTTTTAGCACATGAAGTGCCCTATATG
1 AGAATTCATATAC-TTAATATGATTCCTTTACCATTTTTAGCACACGAAGTGCCCTATACG
*
32573 AAAATTCATACTA-TTAATATGATTTCCTT
1 AGAATTCATA-TACTTAATATGA-TTCCTT
32602 ATCCTTGTAG
Statistics
Matches: 75, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
58 3 0.04
59 17 0.23
60 48 0.64
61 7 0.09
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (60 bp):
AGAATTCATATACTTAATATGATTCCTTTACCATTTTTAGCACACGAAGTGCCCTATACG
Found at i:32562 original size:60 final size:61
Alignment explanation
Indices: 32487--32601 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 61
32477 TTCTTCCTCA
* * *
32487 TTTTAGCACACGAAGTGCCCTATGCGAGAATTCATA-TCATTAGTATGA-TTCCTTTACCAT
1 TTTTAGCACACGAAGTGCCCTATACGAAAATTCATACT-ATTAATATGATTTCCTTTACCAT
* *
32547 TTTTAGCACATGAAGTGCCCTATATGAAAATTCATACTATTAATATGATTTCCTT
1 TTTTAGCACACGAAGTGCCCTATACGAAAATTCATACTATTAATATGATTTCCTT
32602 ATCCTTGTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 41 0.85
61 7 0.15
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (61 bp):
TTTTAGCACACGAAGTGCCCTATACGAAAATTCATACTATTAATATGATTTCCTTTACCAT
Found at i:32653 original size:59 final size:59
Alignment explanation
Indices: 32484--32858 Score: 327
Period size: 59 Copynumber: 6.3 Consensus size: 59
32474 GACTTCTTCC
** * *
32484 TCATTTTAGCACACGAAGTGC-CC-TATGCGAGAATTCATATCA-TTAGTATGA-TTCCTTTA
1 TCATTTTAGCACACTTAGTGCTCCATATG-GA-AATCCATA-CACTCAGTATGATTTCC-TTA
* * * * * *
32543 CCATTTTTAGCACA-TGAAGTGC-CCTATATGAAAATTCATACTA-TTAATATGATTTCCTTA
1 TCA-TTTTAGCACACT-TAGTGCTCC-ATATGGAAATCCATAC-ACTCAGTATGATTTCCTTA
* * * * *** * *
32603 TCCTTGTAGCACCCTTAGTGTTTTTTTTGGAAATCCATACACTCAGTATGATTCCCTTA
1 TCATTTTAGCACACTTAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTA
* * * * * *
32662 CCATTTTAGCACA-TATAATGC-CCTATCTGGAAATCCATATATTCAATATGATTTCCTTA
1 TCATTTTAGCACACT-TAGTGCTCC-ATATGGAAATCCATACACTCAGTATGATTTCCTTA
* *
32721 TCATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATGATTTCCTTA
1 TCATTTTAGCACACTTAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTA
* *
32780 TCTTTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTA
1 TCATTTTAGCACACTTAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTA
*
32839 TCATTTTAGCACACATAGTG
1 TCATTTTAGCACACTTAGTG
32859 TAATTTGGTA
Statistics
Matches: 257, Mismatches: 46, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
58 2 0.01
59 203 0.79
60 43 0.17
61 5 0.02
62 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (59 bp):
TCATTTTAGCACACTTAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTA
Found at i:32713 original size:118 final size:117
Alignment explanation
Indices: 32528--32859 Score: 389
Period size: 118 Copynumber: 2.8 Consensus size: 117
32518 TCATATCATT
* * *
32528 AGTATGATTCCTTTACCATTTTTAGCACATGAAGTGCCCTATATGAAAATTCATACTATT-AATA
1 AGTATGATTCCCTTACCA-TTTTAGCACAT-AAGTGCCCTATATGGAAATCCATA-TATTCAATA
* * * *** *
32592 TGATTTCCTTATCCTTGTAGCACCCTTAGTGTTTTTTTTGGAAATCCATACACTC
63 TGATTTCCTTATCATTTTAGCACACTTAGTGTTCCATATGGAAATCCATACACTC
* *
32647 AGTATGATTCCCTTACCATTTTAGCACATATAATGCCCTATCTGGAAATCCATATATTCAATATG
1 AGTATGATTCCCTTACCATTTTAGCACATA-AGTGCCCTATATGGAAATCCATATATTCAATATG
* * *
32712 ATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTC
65 ATTTCCTTATCATTTTAGCACACTTAGTGTTCCATATGGAAATCCATACACTC
* * * * * * *
32765 AGTATGATTTCCTTATCTTTTTAGCACACTCAGTGCTCC-ATATGGAAATCCATACACTCAGTAT
1 AGTATGATTCCCTTACCATTTTAGCACA-TAAGTGC-CCTATATGGAAATCCATATATTCAATAT
*
32829 GATTTCCTTATCATTTTAGCACACATAGTGT
64 GATTTCCTTATCATTTTAGCACACTTAGTGT
32860 AATTTGGTAA
Statistics
Matches: 182, Mismatches: 27, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
117 5 0.03
118 157 0.86
119 20 0.11
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (117 bp):
AGTATGATTCCCTTACCATTTTAGCACATAAGTGCCCTATATGGAAATCCATATATTCAATATGA
TTTCCTTATCATTTTAGCACACTTAGTGTTCCATATGGAAATCCATACACTC
Found at i:32813 original size:177 final size:178
Alignment explanation
Indices: 32530--32851 Score: 429
Period size: 177 Copynumber: 1.8 Consensus size: 178
32520 ATATCATTAG
*
32530 TATGATTCCTTTACCATTTTTAGCACATGAAGTGCCCTATATGAAAATTCATACTATTAATATGA
1 TATGATTCCTTTACCATTTTTAGCACATGAAGTGCCCTATATGAAAATTCATACTATCAATATGA
* * * *** *
32595 TTTCCTTATCCTTGTAGCACCCTTAGTGTTTTTTTTGGAAATCCATACACTCAGTATGATTCCCT
66 TTTCCTTATCCTTGTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTCCCT
32660 TACCATTTTAGCACATATAATGCCCTATCTGGAAATCCATATATTCAA
131 TACCATTTTAGCACATATAATGCCCTATCTGGAAATCCATATATTCAA
* * * *
32708 TATGATTTCC-TTATCA-TTTTAGCACACT-CAGTGCTCC-ATATGGAAATTCATAC-ACTCAGT
1 TATGA-TTCCTTTACCATTTTTAGCACA-TGAAGTGC-CCTATATGAAAATTCATACTA-TCAAT
* *
32768 ATGATTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATT
62 ATGATTTCCTTATCCTTGTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATT
* *
32833 TCCTTATCATTTTAGCACA
127 CCCTTACCATTTTAGCACA
32852 CATAGTGTAA
Statistics
Matches: 124, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
176 1 0.01
177 106 0.85
178 13 0.10
179 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (178 bp):
TATGATTCCTTTACCATTTTTAGCACATGAAGTGCCCTATATGAAAATTCATACTATCAATATGA
TTTCCTTATCCTTGTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTCCCT
TACCATTTTAGCACATATAATGCCCTATCTGGAAATCCATATATTCAA
Found at i:39206 original size:59 final size:59
Alignment explanation
Indices: 39140--39424 Score: 308
Period size: 59 Copynumber: 4.8 Consensus size: 59
39130 GGCACTATAT
*
39140 GTGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCAATGA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAATGA
* * *
39199 GTGTGCTAAAAAGATAAGGAAATCATACTGAGTGTATGAATTTCCATATGGAGCACTGA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAATGA
* * * * *
39258 GTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGG-GTATTAT-A
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATAT-GGAGCA--ATGA
* * * *** * *
39318 -TGTGCTAAAATGGTAATGAAATCATACTGAGTGTATGGATTTCCAGAAAAAGCACTAA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAATGA
* * * * *
39376 GGGTGCTACAAGGATAAGGAAATCATACT-AATAGTATGGATTTTCATAT
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGT-GTATGGATTTCCATAT
39425 AAGGCACTTC
Statistics
Matches: 188, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
57 1 0.01
58 3 0.02
59 180 0.96
60 3 0.02
61 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (59 bp):
GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAATGA
Found at i:39273 original size:118 final size:117
Alignment explanation
Indices: 39131--39446 Score: 352
Period size: 118 Copynumber: 2.7 Consensus size: 117
39121 TTACCAAATG
*
39131 GCACTATATGTGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATAT-GGAGCA
1 GCACTA-A-GTGTGCTAAAATGATAAGGAAATCATATTGAATGTATGGATTTCCATATAGG-GCA
* ***
39195 -ATGAGTGTGCTAAAAAGATAAGGAAATCATACTGAGTGTATGAATTTCCATATGGA
63 TAT-A-TGTGCTAAAAAGATAAGGAAATCATACTGAGTGTATGAATTTCCAGAAAAA
* * * *
39251 GCACTGAGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGTATTA
1 GCACTAAGTGTGCTAAAATGATAAGGAAATCATATTGAATGTATGGATTTCCATATAGGGCA-TA
* * * *
39316 TATGTGCTAAAATGGTAATGAAATCATACTGAGTGTATGGATTTCCAGAAAAA
65 TATGTGCTAAAAAGATAAGGAAATCATACTGAGTGTATGAATTTCCAGAAAAA
* * * * * *
39369 GCACTAAGGGTGCTACAAGGATAAGGAAATCATACT-AATAGTATGGATTTTCATATAAGGCACT
1 GCACTAAGTGTGCTAAAATGATAAGGAAATCATATTGAAT-GTATGGATTTCCATATAGGGCA-T
39433 -TCATGTGCTAAAAA
64 AT-ATGTGCTAAAAA
39447 TAGTAAAGGA
Statistics
Matches: 166, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
117 4 0.02
118 151 0.91
119 4 0.02
120 7 0.04
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (117 bp):
GCACTAAGTGTGCTAAAATGATAAGGAAATCATATTGAATGTATGGATTTCCATATAGGGCATAT
ATGTGCTAAAAAGATAAGGAAATCATACTGAGTGTATGAATTTCCAGAAAAA
Found at i:39477 original size:60 final size:61
Alignment explanation
Indices: 39391--39505 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 61
39381 CTACAAGGAT
* *
39391 AAGGAAATCATACTAATAGTATGGATTTTCATATAAGGCACTTCATGTGCTAAAAATAGTA
1 AAGGAAATCATACTAATAGTATGGATTCTCACATAAGGCACTTCATGTGCTAAAAATAGTA
* * * * *
39452 AAGG-AATCATATTAATGGTATGGATTCTCGCATAGGGCACTTCGTGTGCTAAAA
1 AAGGAAATCATACTAATAGTATGGATTCTCACATAAGGCACTTCATGTGCTAAAA
39506 TGAGGAGGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 43 0.91
61 4 0.09
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (61 bp):
AAGGAAATCATACTAATAGTATGGATTCTCACATAAGGCACTTCATGTGCTAAAAATAGTA
Found at i:39646 original size:44 final size:44
Alignment explanation
Indices: 39597--39777 Score: 247
Period size: 44 Copynumber: 4.1 Consensus size: 44
39587 GTACAAATTT
* * * * *
39597 CTTATGAAATTATAGCAAGTAGATTGATAAAATAAGCTTGCGAG
1 CTTATGAAATAATAGTAAGTATATTGGTAAAATAAGCTTACGAG
*
39641 CTTATGAAATAA-AGGTAAGTATAGTGGTAAAATAAGCTTACGAG
1 CTTATGAAATAATA-GTAAGTATATTGGTAAAATAAGCTTACGAG
* * * *
39685 CTTTTGGAATAATGGTAAGAATATTGGTAAAATAAGCTTACGAG
1 CTTATGAAATAATAGTAAGTATATTGGTAAAATAAGCTTACGAG
*
39729 CTTATGAAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAG
1 CTTATGAAATAATAGTAAGTATATTGGTAAAATAAGCTTACGAG
39773 CTTAT
1 CTTAT
39778 AGATTAAATG
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
43 1 0.01
44 120 0.99
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (44 bp):
CTTATGAAATAATAGTAAGTATATTGGTAAAATAAGCTTACGAG
Found at i:52971 original size:60 final size:60
Alignment explanation
Indices: 52886--53051 Score: 167
Period size: 60 Copynumber: 2.8 Consensus size: 60
52876 ACTATATGTC
* ** * *
52886 CTCAAACTATGGCTCCCATTCTAAATTAATCCTCAAACTTTTGAACATTCT-AATTC-TA
1 CTCAAACTATGACTCTAATTCTAAATTAGTCCTAAAACTTTTGAACATTCTAAATTCATA
* * ** * *
52944 TCTCTAAATTATGACTCTCAA-TCTAAATTGGTTTTTAAACATTTGAACATTCTAAATTCATA
1 -CTC-AAACTATGACTCT-AATTCTAAATTAGTCCTAAAACTTTTGAACATTCTAAATTCATA
* *
53006 CTCAAACTATGATTCTAATTTTAAATTAGTCCTAAAACTTTTGAAC
1 CTCAAACTATGACTCTAATTCTAAATTAGTCCTAAAACTTTTGAAC
53052 GGTCCAATAA
Statistics
Matches: 84, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
59 5 0.06
60 68 0.81
61 9 0.11
62 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (60 bp):
CTCAAACTATGACTCTAATTCTAAATTAGTCCTAAAACTTTTGAACATTCTAAATTCATA
Found at i:53191 original size:60 final size:60
Alignment explanation
Indices: 53127--53271 Score: 157
Period size: 59 Copynumber: 2.4 Consensus size: 60
53117 GGGATTATTA
* * * * * * * *
53127 TAGAATGAGGGTCATATTTTAGGGTTAAAATTGAAATACTCAAAAGTTTAAGGATCGATT
1 TAGAATGAGGATCATAGTTTAGGGATAAAACTAAAATACTCAAAAATTTAAAGATCAATT
* * * *
53187 TAGAATGA-GATTATAGCTTAGGGATGAAACTAAAATATTCAAAAATTTAAAGATCAATT
1 TAGAATGAGGATCATAGTTTAGGGATAAAACTAAAATACTCAAAAATTTAAAGATCAATT
* *
53246 TAAAATGAGGATCATAGTTTAAGGAT
1 TAGAATGAGGATCATAGTTTAGGGAT
53272 GTTTAGTGCC
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
59 46 0.68
60 22 0.32
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (60 bp):
TAGAATGAGGATCATAGTTTAGGGATAAAACTAAAATACTCAAAAATTTAAAGATCAATT
Found at i:53450 original size:18 final size:19
Alignment explanation
Indices: 53415--53451 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
53405 CACGGAACGT
53415 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
53435 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
53452 TGATTACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:53673 original size:36 final size:38
Alignment explanation
Indices: 53600--53674 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 38
53590 GTTGGAGAAT
*
53600 ATTTATATATTTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTTCTTTAAAAAATTTAAAATCATAAA
*
53638 ATTTATATATTTTT-TTT-ACAAATTTAAAAAT-ATAAA
1 ATTTATATATTTTTCTTTAAAAAATTT-AAAATCATAAA
53674 A
1 A
53675 ATGTTTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 13 0.38
37 7 0.21
38 14 0.41
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (38 bp):
ATTTATATATTTTTCTTTAAAAAATTTAAAATCATAAA
Found at i:54125 original size:104 final size:104
Alignment explanation
Indices: 53940--54145 Score: 331
Period size: 104 Copynumber: 2.0 Consensus size: 104
53930 CAAAAAATCC
* *
53940 ACTATTGGTAATGTAAGATCACCGGGAATGACATTCCCGACCAATCAAACGGGGGAATGTGGATT
1 ACTATTGGTAATGTAAGATCACCGGGAATGACATTCCCGACCAATCAAACGGGGAAATGTAGATT
*
54005 TCATTCCCATGGGAATCTCACATTCCCCCAACCAAACCT
66 TCATTCCCATGAGAATCTCACATTCCCCCAACCAAACCT
* * * * **
54044 ACTATTGGTAATGTAAGATTATCGGGAATGACATTTCTGGTCAATCAAACGGGGAAATGTAGATT
1 ACTATTGGTAATGTAAGATCACCGGGAATGACATTCCCGACCAATCAAACGGGGAAATGTAGATT
54109 TCATTCCCATGAGAATCTCACATTCCCCCAACCAAAC
66 TCATTCCCATGAGAATCTCACATTCCCCCAACCAAAC
54146 ACACTCTTAG
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
104 93 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (104 bp):
ACTATTGGTAATGTAAGATCACCGGGAATGACATTCCCGACCAATCAAACGGGGAAATGTAGATT
TCATTCCCATGAGAATCTCACATTCCCCCAACCAAACCT
Found at i:54335 original size:20 final size:20
Alignment explanation
Indices: 54310--54347 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
54300 TTTATTTAGC
54310 CTTTATTTTTTATATATCGT
1 CTTTATTTTTTATATATCGT
54330 CTTTATTTTTTATATATC
1 CTTTATTTTTTATATATC
54348 ATACTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.11, G:0.03, T:0.66
Consensus pattern (20 bp):
CTTTATTTTTTATATATCGT
Found at i:54355 original size:20 final size:20
Alignment explanation
Indices: 54310--54358 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
54300 TTTATTTAGC
*
54310 CTTTATTTTTTATATATCGT
1 CTTTATTTTTTATATATCAT
54330 CTTTATTTTTTATATATCAT
1 CTTTATTTTTTATATATCAT
54350 AC-TTATTTT
1 -CTTTATTTT
54359 GATTACAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.65
Consensus pattern (20 bp):
CTTTATTTTTTATATATCAT
Found at i:55664 original size:13 final size:14
Alignment explanation
Indices: 55646--55683 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
55636 ATATGCCCTT
*
55646 TCCCTAACTTA-AA
1 TCCCTAAATTATAA
55659 TCCCTAAATTATAA
1 TCCCTAAATTATAA
*
55673 ACCCTAAATTA
1 TCCCTAAATTA
55684 GTAGTTTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (14 bp):
TCCCTAAATTATAA
Found at i:56344 original size:2 final size:2
Alignment explanation
Indices: 56337--56365 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
56327 GTTGACAAGC
56337 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
56366 GTCAAACTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65170 original size:18 final size:16
Alignment explanation
Indices: 65130--65179 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
65120 AAAATAAAAT
*
65130 TATTTAAATTA-TAAA
1 TATTTAAAATATTAAA
65145 TA--TAAAATTATTCAAA
1 TATTTAAAA-TATT-AAA
65161 TATTTAAAATATTAAA
1 TATTTAAAATATTAAA
65177 TAT
1 TAT
65180 GAAAAAACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
13 4 0.14
14 2 0.07
15 3 0.10
16 11 0.38
17 4 0.14
18 5 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TATTTAAAATATTAAA
Found at i:68421 original size:48 final size:49
Alignment explanation
Indices: 68369--68464 Score: 167
Period size: 50 Copynumber: 2.0 Consensus size: 49
68359 TTCAAACTAA
68369 TAATTAATATTGTTTAGTAG-TTGTAATTAAAATCTTTATCCATTATCT
1 TAATTAATATTGTTTAGTAGTTTGTAATTAAAATCTTTATCCATTATCT
*
68417 TAATTAATATTGTTTAGTAGTTTTGTAATTAAAATCTTTATTCATTAT
1 TAATTAATATTGTTTAGTAG-TTTGTAATTAAAATCTTTATCCATTAT
68465 ATTCTCTGTC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 20 0.44
50 25 0.56
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (49 bp):
TAATTAATATTGTTTAGTAGTTTGTAATTAAAATCTTTATCCATTATCT
Found at i:68445 original size:25 final size:25
Alignment explanation
Indices: 68369--68448 Score: 64
Period size: 25 Copynumber: 3.3 Consensus size: 25
68359 TTCAAACTAA
68369 TAATTAATATTGTTTAGTAG--TTG
1 TAATTAATATTGTTTAGTAGTTTTG
* *
68392 TAATTAA-AATCTTTA-TCCA-TTATCT-
1 TAATTAATATTGTTTAGT--AGTT-T-TG
68417 TAATTAATATTGTTTAGTAGTTTTG
1 TAATTAATATTGTTTAGTAGTTTTG
68442 TAATTAA
1 TAATTAA
68449 AATCTTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 1 0.02
22 6 0.14
23 8 0.19
24 1 0.02
25 17 0.40
26 9 0.21
27 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (25 bp):
TAATTAATATTGTTTAGTAGTTTTG
Found at i:69427 original size:35 final size:35
Alignment explanation
Indices: 69380--69465 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 35
69370 AAAACAGTCC
* * *
69380 TCAATTTCATTCTAAA-CCTCAAATTCTAAAGTAAT
1 TCAATTTAATTCTAAACCCT-AAATTCCAAAATAAT
* *
69415 TCAATTTTATTCTAAACCCTATATTCCAAAATAAT
1 TCAATTTAATTCTAAACCCTAAATTCCAAAATAAT
*
69450 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
69466 ACACTTCAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
35 41 0.93
36 3 0.07
ACGTcount: A:0.42, C:0.19, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCTAAATTCCAAAATAAT
Found at i:69461 original size:21 final size:21
Alignment explanation
Indices: 69437--69476 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
69427 TAAACCCTAT
*
69437 ATTCCAAAATAATTCAATTAA
1 ATTCCAAAACAATTCAATTAA
* *
69458 ATTCTAAAACACTTCAATT
1 ATTCCAAAACAATTCAATT
69477 TAAGGTTTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTCCAAAACAATTCAATTAA
Found at i:69519 original size:35 final size:35
Alignment explanation
Indices: 69473--69547 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
69463 AAAACACTTC
* * *
69473 AATTTAAGGTTTAGAATGTAATTGAATTATTTTGG
1 AATTTAAGGTTTAAAATGAAATTGAATTACTTTGG
*
69508 AATTTAGGGTTTAAAATGAAATTGAATTACTTTGG
1 AATTTAAGGTTTAAAATGAAATTGAATTACTTTGG
69543 AATTT
1 AATTT
69548 TGAACATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.44
Consensus pattern (35 bp):
AATTTAAGGTTTAAAATGAAATTGAATTACTTTGG
Found at i:69551 original size:24 final size:24
Alignment explanation
Indices: 69524--69595 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
69514 GGGTTTAAAA
69524 TGAAATTGAATTACTTTGGAATTT
1 TGAAATTGAATTACTTTGGAATTT
*
69548 TGAACA-TGAATTTACTATTTAGAA---
1 TGAA-ATTGAA-TTAC--TTTGGAATTT
*
69572 TAAAATTGAATTACTTTGGAATTT
1 TGAAATTGAATTACTTTGGAATTT
69596 GGGGTTTAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 16
0.66 0.05 0.29
Matches are distributed among these distances:
21 6 0.16
23 5 0.14
24 15 0.41
25 5 0.14
27 6 0.16
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.43
Consensus pattern (24 bp):
TGAAATTGAATTACTTTGGAATTT
Found at i:71340 original size:37 final size:36
Alignment explanation
Indices: 71315--71636 Score: 341
Period size: 38 Copynumber: 8.6 Consensus size: 36
71305 TTGCAAACGG
71315 TTTTTGAAAATGTATATAATATATAGTTTTTTTAAAACA
1 TTTTTGAAAAT-TATATAATATATAG--TTTTTAAAACA
*
71354 TTTTAGAAAA-TATATAATATATAGTTTTTAAAATCA
1 TTTTTGAAAATTATATAATATATAGTTTTTAAAA-CA
*
71390 -TTTTGAAAACTTATATAATATATAG-TTTTGAAACA
1 TTTTTGAAAA-TTATATAATATATAGTTTTTAAAACA
* *
71425 TTTTTAAAAATTTATATAATATATAGTTTTGAAAACA
1 TTTTTGAAAA-TTATATAATATATAGTTTTTAAAACA
* *
71462 -CTTTGAAAACATTTATATATTATATAGTTTTTAAAAACA
1 TTTTTG-AAA-A-TTATATAATATATAGTTTTT-AAAACA
71501 -TTTTGAAAATATATATAATATATAGTTTTTTAAAACA
1 TTTTTGAAAAT-TATATAATATATAG-TTTTTAAAACA
*
71538 TTTTTGAAAATATATATATTATATAGTTTTTTAAAACA
1 TTTTTGAAAAT-TATATAATATATAG-TTTTTAAAACA
* *
71576 TTTTTTAAAA-TACGTATAATATATAGTTTTTAAAAAGA
1 TTTTTGAAAATTA--TATAATATATAGTTTTT-AAAACA
* * *
71614 TTTTGGAAATTTATATATTATAT
1 TTTTTGAAAATTATATAATATAT
71637 GTTGTTTTTT
Statistics
Matches: 247, Mismatches: 21, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
35 19 0.08
36 38 0.15
37 73 0.30
38 96 0.39
39 21 0.09
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (36 bp):
TTTTTGAAAATTATATAATATATAGTTTTTAAAACA
Found at i:71666 original size:3 final size:3
Alignment explanation
Indices: 71660--71692 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
71650 AATATTTTTA
*
71660 TAT TAT TAT TAT TAT TCT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
71693 TATTTCTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:73225 original size:19 final size:17
Alignment explanation
Indices: 73192--73238 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
73182 TTTTTTAACT
73192 TTTTTTCC-TTTATTTA
1 TTTTTTCCTTTTATTTA
73208 CTTTTTTCCTTTTGATTTA
1 -TTTTTTCCTTTT-ATTTA
73227 TTATTTT-CTTTT
1 TT-TTTTCCTTTT
73239 TTTCCTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 8 0.30
18 10 0.37
19 9 0.33
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTTTCCTTTTATTTA
Found at i:73239 original size:27 final size:27
Alignment explanation
Indices: 73201--73256 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
73191 TTTTTTTCCT
73201 TTATTTACTTTTTTCCT-TTTGATTTA
1 TTATTTACTTTTTTCCTCTTTGATTTA
*
73227 TTATTTTCTTTTTTTCCTCTTTGATTTA
1 TTATTTAC-TTTTTTCCTCTTTGATTTA
73255 TT
1 TT
73257 TAATATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 7 0.26
27 9 0.33
28 11 0.41
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.71
Consensus pattern (27 bp):
TTATTTACTTTTTTCCTCTTTGATTTA
Found at i:73269 original size:28 final size:27
Alignment explanation
Indices: 73211--73269 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
73201 TTATTTACTT
* * *
73211 TTTTCCTTTTGATTTATTATTTTCTTT
1 TTTTCCTTTTGATTTATTAATATCTTA
73238 TTTTCCTCTTTGATTTATTTAATAT-TTA
1 TTTTCCT-TTTGATTTA-TTAATATCTTA
73266 TTTT
1 TTTT
73270 TATTATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.26
28 15 0.56
29 5 0.19
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.71
Consensus pattern (27 bp):
TTTTCCTTTTGATTTATTAATATCTTA
Found at i:74702 original size:23 final size:22
Alignment explanation
Indices: 74642--74705 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 22
74632 TAAGAATAAT
*
74642 TATGTCTTTGTGACA--TGTTC
1 TATGTCTTTGTGACACGTTTTC
* * *
74662 TCTGTCTTTATGAAACGTTTATC
1 TATGTCTTTGTGACACGTTT-TC
74685 TATGTCTTTGTGACACGTTTT
1 TATGTCTTTGTGACACGTTTT
74706 TCTCTGCCTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
20 12 0.35
22 3 0.09
23 19 0.56
ACGTcount: A:0.17, C:0.16, G:0.17, T:0.50
Consensus pattern (22 bp):
TATGTCTTTGTGACACGTTTTC
Found at i:74716 original size:23 final size:23
Alignment explanation
Indices: 74659--74716 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
74649 TTGTGACATG
74659 TTCTCTGTCTTTATGAAACGTTT
1 TTCTCTGTCTTTATGAAACGTTT
* * * *
74682 ATCTATGTCTTTGTGACACGTTT
1 TTCTCTGTCTTTATGAAACGTTT
*
74705 TTCTCTGCCTTT
1 TTCTCTGTCTTT
74717 TGGTAGCTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.52
Consensus pattern (23 bp):
TTCTCTGTCTTTATGAAACGTTT
Found at i:82199 original size:23 final size:24
Alignment explanation
Indices: 82173--82222 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
82163 AAAACTATTA
*
82173 AATTTATCA-AACTATTA-TAAAAT
1 AATTTATCATAA-TATTATTAAAAC
82196 AA-TTATCATAATATTATTAAAAC
1 AATTTATCATAATATTATTAAAAC
82219 AATT
1 AATT
82223 ATTAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
22 11 0.48
23 11 0.48
24 1 0.04
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTTATCATAATATTATTAAAAC
Found at i:82201 original size:22 final size:23
Alignment explanation
Indices: 82176--82224 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
82166 ACTATTAAAT
*
82176 TTATCA-AACTATTA-TAAAATAA
1 TTATCATAA-TATTATTAAAACAA
82198 TTATCATAATATTATTAAAACAA
1 TTATCATAATATTATTAAAACAA
82221 TTAT
1 TTAT
82225 TAAATTTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (23 bp):
TTATCATAATATTATTAAAACAA
Found at i:82204 original size:52 final size:54
Alignment explanation
Indices: 82119--82237 Score: 136
Period size: 52 Copynumber: 2.2 Consensus size: 54
82109 ATATAATCAC
* * * * *
82119 TAAATTTATTAAATTTATATAAAATGATCATCATGATACTA-TAGAA-AACTAT
1 TAAATTTATCAAATATATATAAAATAATCATCATAATACTATTAAAACAACTAT
* * *
82171 TAAATTTATCAAACTAT-TATAAAATAATTATCATAATATTATTAAAACAATTAT
1 TAAATTTATCAAA-TATATATAAAATAATCATCATAATACTATTAAAACAACTAT
82225 TAAATTTATCAAA
1 TAAATTTATCAAA
82238 GTTTATCATT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
52 32 0.57
53 6 0.11
54 18 0.32
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (54 bp):
TAAATTTATCAAATATATATAAAATAATCATCATAATACTATTAAAACAACTAT
Found at i:83988 original size:65 final size:65
Alignment explanation
Indices: 83918--84073 Score: 185
Period size: 65 Copynumber: 2.4 Consensus size: 65
83908 CATACCCATT
* * *
83918 TCGAATACAATTTATGCACCGATGCACCAGA-CATGCATCGATGCACTCTAAGTTTTATTAAAAC
1 TCGAATACAATTTATGCACCGATGCACCAAACCATGCATCGATGCACTCTAACTATT-TTAAAAC
83982 A
65 A
* * *
83983 TCGAATTA-ATTTTATGCACCGATGCA-CAAACCATGCATCGATGCACTCTGACTATTTTGAAAC
1 TCGAA-TACAATTTATGCACCGATGCACCAAACCATGCATCGATGCACTCTAACTATTTTAAAAC
84046 A
65 A
* *
84047 TCGAA-GCAAATTAGTGCACCGATGCAC
1 TCGAATACAATTTA-TGCACCGATGCAC
84074 ACCCTAGTGT
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
63 4 0.05
64 27 0.35
65 44 0.57
66 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (65 bp):
TCGAATACAATTTATGCACCGATGCACCAAACCATGCATCGATGCACTCTAACTATTTTAAAACA
Found at i:89901 original size:23 final size:21
Alignment explanation
Indices: 89871--89949 Score: 68
Period size: 23 Copynumber: 3.6 Consensus size: 21
89861 CACTAACTAG
89871 TGCATCGATGCATCCTTTGAATA
1 TGCATCGATGCAT-C-TTGAATA
* * *
89894 TGCATCGATACATCATGAAGA
1 TGCATCGATGCATCTTGAATA
* * *
89915 TTCACCGATGCATTCATTGAATG
1 TGCATCGATGCA-TC-TTGAATA
89938 TGCATCGATGCA
1 TGCATCGATGCA
89950 CTCTGCCGTG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
21 14 0.33
22 3 0.07
23 26 0.60
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (21 bp):
TGCATCGATGCATCTTGAATA
Found at i:91855 original size:18 final size:18
Alignment explanation
Indices: 91832--91866 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91822 TTCCATCCGG
*
91832 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
91850 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
91867 GTCCTTTCGA
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:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:93167 original size:7 final size:7
Alignment explanation
Indices: 93155--93193 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
93145 TGGTCAACTC
93155 CGGTCAA
1 CGGTCAA
93162 CGGTCAA
1 CGGTCAA
*
93169 TGGGTCAA
1 -CGGTCAA
93177 CGGTCAA
1 CGGTCAA
93184 CGGTCAA
1 CGGTCAA
93191 CGG
1 CGG
93194 GTCGGGTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.26, C:0.26, G:0.33, T:0.15
Consensus pattern (7 bp):
CGGTCAA
Found at i:93183 original size:22 final size:22
Alignment explanation
Indices: 93155--93196 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
93145 TGGTCAACTC
*
93155 CGGTCAACGGTCAATGGGTCAA
1 CGGTCAACGGTCAACGGGTCAA
93177 CGGTCAACGGTCAACGGGTC
1 CGGTCAACGGTCAACGGGTC
93197 GGGTCAACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.33, T:0.17
Consensus pattern (22 bp):
CGGTCAACGGTCAACGGGTCAA
Found at i:93196 original size:15 final size:14
Alignment explanation
Indices: 93155--93193 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
93145 TGGTCAACTC
93155 CGGTCAACGGTCAA
1 CGGTCAACGGTCAA
*
93169 TGGGTCAACGGTCAA
1 -CGGTCAACGGTCAA
93184 CGGTCAACGG
1 CGGTCAACGG
93194 GTCGGGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.26, C:0.26, G:0.33, T:0.15
Consensus pattern (14 bp):
CGGTCAACGGTCAA
Found at i:93203 original size:13 final size:13
Alignment explanation
Indices: 93185--93245 Score: 68
Period size: 13 Copynumber: 4.3 Consensus size: 13
93175 AACGGTCAAC
93185 GGTCAACGGGTCG
1 GGTCAACGGGTCG
93198 GGTCAACGGGTCGGGTCG
1 GGTCAA-----CGGGTCG
93216 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
93229 GGTAAACGGGTCG
1 GGTCAACGGGTCG
93242 GGTC
1 GGTC
93246 GGGTAAACGG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 28 0.68
18 13 0.32
ACGTcount: A:0.15, C:0.21, G:0.48, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:93214 original size:18 final size:18
Alignment explanation
Indices: 93191--93267 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
93181 CAACGGTCAA
*
93191 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTAAACGGGT
*
93209 CGGGTCGGGTCAA-----
1 CGGGTCGGGTAAACGGGT
93222 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
93240 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
93258 CGGGTCGGGT
1 CGGGTCGGGT
93268 TGTGACCGGT
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
13 12 0.23
18 41 0.77
ACGTcount: A:0.13, C:0.19, G:0.51, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:93223 original size:31 final size:31
Alignment explanation
Indices: 93185--93263 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
93175 AACGGTCAAC
93185 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
*
93216 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
*
93247 GGTAAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
93264 GGGTTGTGAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.15, C:0.20, G:0.48, T:0.16
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
Found at i:96468 original size:51 final size:51
Alignment explanation
Indices: 96406--96507 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
96396 TGATGCATCG
*
96406 ATGCACGCCCATTTCGAATACAATTTATGCACCAATGCACCAGACATGCAT
1 ATGCACACCCATTTCGAATACAATTTATGCACCAATGCACCAGACATGCAT
96457 ATGCACACCCATTTCGAATACAATTTATGCACCAATGCACCAGACATGCAT
1 ATGCACACCCATTTCGAATACAATTTATGCACCAATGCACCAGACATGCAT
96508 CGATGCACTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (51 bp):
ATGCACACCCATTTCGAATACAATTTATGCACCAATGCACCAGACATGCAT
Found at i:105211 original size:2 final size:2
Alignment explanation
Indices: 105204--105256 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
105194 TAACTATAGG
105204 TA TA TA TA TA TA 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
105246 TA TA TA TA TA T
1 TA TA TA TA TA T
105257 GAAAATAACT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:114167 original size:2 final size:2
Alignment explanation
Indices: 114160--114193 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
114150 GATTTTAGGG
*
114160 TA TA TA TA CA 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
114194 AATGTGAGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:114740 original size:2 final size:2
Alignment explanation
Indices: 114733--114766 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
114723 AAAACAATTG
*
114733 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114767 GTACCGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122124 original size:21 final size:20
Alignment explanation
Indices: 122094--122132 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
122084 AGTGGCACTT
122094 TAAAAATGCCACTATAGAGA
1 TAAAAATGCCACTATAGAGA
122114 TAAAACATGCCACTATAGA
1 TAAAA-ATGCCACTATAGA
122133 CCAAGTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.49, C:0.18, G:0.13, T:0.21
Consensus pattern (20 bp):
TAAAAATGCCACTATAGAGA
Found at i:126826 original size:24 final size:24
Alignment explanation
Indices: 126799--126844 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
126789 ATACCCTCTC
*
126799 AAACACAATATAATCATCACCACA
1 AAACACAATATAATCACCACCACA
126823 AAACACAATATAATCACCACCA
1 AAACACAATATAATCACCACCA
126845 GAATTAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.15
Consensus pattern (24 bp):
AAACACAATATAATCACCACCACA
Found at i:133397 original size:20 final size:20
Alignment explanation
Indices: 133372--133444 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
133362 TTTTTGGCTC
133372 AAAGGATCGATCTCCTAGCA
1 AAAGGATCGATCTCCTAGCA
* *
133392 AAAGGATCGATC-CCTTTAACC
1 AAAGGATCGATCTCC--TAGCA
* * * *
133413 AAAGGACCAATCTCCTTGAA
1 AAAGGATCGATCTCCTAGCA
133433 AAAGGATCGATC
1 AAAGGATCGATC
133445 CCTTGGATTC
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.05
20 23 0.57
21 13 0.32
22 2 0.05
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (20 bp):
AAAGGATCGATCTCCTAGCA
Found at i:133428 original size:41 final size:41
Alignment explanation
Indices: 133371--133448 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
133361 ATTTTTGGCT
* * *
133371 CAAAGGATCGATCTCCTAGCAAAAGGATCGATCCCTTTAAC
1 CAAAGGACCAATCTCCTAGAAAAAGGATCGATCCCTTTAAC
*
133412 CAAAGGACCAATCTCCTTGAAAAAGGATCGATCCCTT
1 CAAAGGACCAATCTCCTAGAAAAAGGATCGATCCCTT
133449 GGATTCCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (41 bp):
CAAAGGACCAATCTCCTAGAAAAAGGATCGATCCCTTTAAC
Found at i:136814 original size:19 final size:19
Alignment explanation
Indices: 136790--136847 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
136780 TTTTTGGCTC
136790 AAAGGATCGATCCCTAGGA
1 AAAGGATCGATCCCTAGGA
* * *
136809 AAAGGATCAATCCCCTTGAA
1 AAAGGATCGAT-CCCTAGGA
136829 AAAGGATCGATCCCTAGGA
1 AAAGGATCGATCCCTAGGA
136848 TTCCAGTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (19 bp):
AAAGGATCGATCCCTAGGA
Found at i:136831 original size:20 final size:20
Alignment explanation
Indices: 136790--136842 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
136780 TTTTTGGCTC
*
136790 AAAGGATCGAT-CCCTAGGA
1 AAAGGATCGATCCCCTAGAA
* *
136809 AAAGGATCAATCCCCTTGAA
1 AAAGGATCGATCCCCTAGAA
136829 AAAGGATCGATCCC
1 AAAGGATCGATCCC
136843 TAGGATTCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (20 bp):
AAAGGATCGATCCCCTAGAA
Found at i:136904 original size:21 final size:21
Alignment explanation
Indices: 136880--136924 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
136870 CCCTCGTTGG
*
136880 AAAGGATCGATCCCTTCCTTT
1 AAAGGATCAATCCCTTCCTTT
*
136901 AAAGGATCAATCCCTTTCTTT
1 AAAGGATCAATCCCTTCCTTT
136922 AAA
1 AAA
136925 CGACCAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.33
Consensus pattern (21 bp):
AAAGGATCAATCCCTTCCTTT
Found at i:143584 original size:20 final size:20
Alignment explanation
Indices: 143559--143610 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
143549 GATAAGTTAG
143559 TATCGATACTCTAGGCTGAA
1 TATCGATACTCTAGGCTGAA
*
143579 TATCGATACACTAGGCTGAA
1 TATCGATACTCTAGGCTGAA
*
143599 TATTGATACTCT
1 TATCGATACTCT
143611 GGTATCGGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (20 bp):
TATCGATACTCTAGGCTGAA
Found at i:147481 original size:20 final size:20
Alignment explanation
Indices: 147452--147490 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
147442 ATTTCATCGC
*
147452 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
147472 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
147491 TATGAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:148224 original size:144 final size:145
Alignment explanation
Indices: 147957--148244 Score: 533
Period size: 144 Copynumber: 2.0 Consensus size: 145
147947 ACAAGGTTCG
147957 ATTGCTCCTGGGCACTTACTAATTCTAACACTTACTAATGTCATGGCATATTCATTATACTAATA
1 ATTGCTCCTGGGCACTTACTAATTCTAACACTTACTAATGTCATGGCATATTCATTATACTAATA
* *
148022 CTATCATGCAATGATTTAGGAACCCTACCTCCCTCAAACTTGAGAGAAGCATTGTCCTCAATGCT
66 CTATCATGCAATGATTTAGGAACCCTACCTCCCCCAAACTTGAGAGAAGCATTGTCCTCAATGAT
148087 TTCTAAAAAATAAGC
131 TTCTAAAAAATAAGC
148102 ATTG-TCCTGGGCACTTACTAATTCTAACACTTACTAATGTCATGGCATATTCATTATACTAATA
1 ATTGCTCCTGGGCACTTACTAATTCTAACACTTACTAATGTCATGGCATATTCATTATACTAATA
* *
148166 CTATCATGCAATGATTTGGGAACCCTACCTCCCCCAAACTTGAGAGAAGCATTTTCCTCAATGAT
66 CTATCATGCAATGATTTAGGAACCCTACCTCCCCCAAACTTGAGAGAAGCATTGTCCTCAATGAT
148231 TTCTAAAAAATAAG
131 TTCTAAAAAATAAG
148245 TTAAAACTAG
Statistics
Matches: 139, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
144 135 0.97
145 4 0.03
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (145 bp):
ATTGCTCCTGGGCACTTACTAATTCTAACACTTACTAATGTCATGGCATATTCATTATACTAATA
CTATCATGCAATGATTTAGGAACCCTACCTCCCCCAAACTTGAGAGAAGCATTGTCCTCAATGAT
TTCTAAAAAATAAGC
Found at i:161007 original size:20 final size:20
Alignment explanation
Indices: 160974--161023 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
160964 TTTCAACTAG
*
160974 GGTATCGATAACTTGGGTAA
1 GGTATAGATAACTTGGGTAA
*
160994 GGTATAGATGACTTGGGTAA
1 GGTATAGATAACTTGGGTAA
*
161014 GGTATCGATA
1 GGTATAGATA
161024 TTGAAGATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (20 bp):
GGTATAGATAACTTGGGTAA
Found at i:182232 original size:108 final size:111
Alignment explanation
Indices: 182042--182261 Score: 340
Period size: 108 Copynumber: 2.0 Consensus size: 111
182032 GTAGAGAGTT
* *
182042 TGACCTGGTTCAACTTCGAATATAAATTATATCTACGTGATTACGGAACAGTAAAAGATCTTAGA
1 TGACCTGGTTCAACTTCGAATATAAATCATATCTACGTGATTACGGAACAATAAAAGATCTTAGA
*
182107 GAGAAGGAAAAAAGTT-AAGGTCTAGAAAACGTTGTATA-TATGTA
66 GAGAAGGAAAAAAGTTAAAGGTCTAGAAAACGTTGGATATTATGTA
** *
182151 TGACCTGGTTCAACTTCGAATAT-AATCATATCTACGTGATTACGGGGCAATAAAGGATCTT-GA
1 TGACCTGGTTCAACTTCGAATATAAATCATATCTACGTGATTACGGAACAATAAAAGATCTTAGA
*
182214 GAGAAAGGAAAAAAGTTAAAGGTCTAGAAAACTTTGGATATTATGTA
66 GAG-AAGGAAAAAAGTTAAAGGTCTAGAAAACGTTGGATATTATGTA
182261 T
1 T
182262 TATCCATTGT
Statistics
Matches: 101, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
107 5 0.05
108 46 0.46
109 43 0.43
110 7 0.07
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (111 bp):
TGACCTGGTTCAACTTCGAATATAAATCATATCTACGTGATTACGGAACAATAAAAGATCTTAGA
GAGAAGGAAAAAAGTTAAAGGTCTAGAAAACGTTGGATATTATGTA
Found at i:183179 original size:22 final size:21
Alignment explanation
Indices: 183153--183223 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 21
183143 TACTTTTTAA
183153 TATTTTAAATTAAAATAATAT
1 TATTTTAAATTAAAATAATAT
* *
183174 CTA-TTTAATTTAATAATAAAAT
1 -TATTTTAAATTAA-AATAATAT
* * *
183196 GAGTGTCAAATTAAAATAATATT
1 TA-TTTTAAATTAAAATAATA-T
183219 TATTT
1 TATTT
183224 AATTTTTGAA
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
21 10 0.28
22 17 0.47
23 9 0.25
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (21 bp):
TATTTTAAATTAAAATAATAT
Found at i:183904 original size:3 final size:3
Alignment explanation
Indices: 183896--183924 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
183886 TATCTGAAAC
183896 TCT TCT TCT TCT TCT TCT TCT T-T TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
183925 CCAACGTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:184426 original size:19 final size:19
Alignment explanation
Indices: 184402--184438 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
184392 AGATTATGCA
184402 GGGGTATAGATTCCCCCTG
1 GGGGTATAGATTCCCCCTG
*
184421 GGGGTATCGATTCCCCCT
1 GGGGTATAGATTCCCCCT
184439 AAAGAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.27
Consensus pattern (19 bp):
GGGGTATAGATTCCCCCTG
Found at i:185338 original size:23 final size:23
Alignment explanation
Indices: 185305--185348 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
185295 GAGTCGAGGG
185305 TCTACGCGGTCCTTCGGGACAAT
1 TCTACGCGGTCCTTCGGGACAAT
*
185328 TCTACGTGGTCCTTCGGGACA
1 TCTACGCGGTCCTTCGGGACA
185349 TATATGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (23 bp):
TCTACGCGGTCCTTCGGGACAAT
Found at i:187509 original size:20 final size:20
Alignment explanation
Indices: 187484--187523 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
187474 CTGGAATATT
* *
187484 GGTCTCAATTCCAAGCCCCC
1 GGTCTCAATACCAAACCCCC
*
187504 GGTCTCGATACCAAACCCCC
1 GGTCTCAATACCAAACCCCC
187524 AATATCAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.45, G:0.15, T:0.17
Consensus pattern (20 bp):
GGTCTCAATACCAAACCCCC
Found at i:189961 original size:24 final size:24
Alignment explanation
Indices: 189934--189979 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
189924 AGCTGCATTT
*
189934 GAGTTGTTCAATATGGCATAGATC
1 GAGTTATTCAATATGGCATAGATC
189958 GAGTTATTCAATATGGCATAGA
1 GAGTTATTCAATATGGCATAGA
189980 CATCGGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (24 bp):
GAGTTATTCAATATGGCATAGATC
Found at i:203081 original size:18 final size:17
Alignment explanation
Indices: 203035--203078 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
203025 ATCGATTAAG
203035 TAAT-GATTTTATTTTT
1 TAATAGATTTTATTTTT
203051 TAATAGATTTTATTTTT
1 TAATAGATTTTATTTTT
203068 TAATAGATTTT
1 TAATAGATTTT
203079 TATATTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.15
17 23 0.85
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (17 bp):
TAATAGATTTTATTTTT
Found at i:214998 original size:12 final size:12
Alignment explanation
Indices: 214971--215005 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
214961 GGGATTTTTC
214971 ATAAATTGAA-T
1 ATAAATTGAATT
214982 ATAAATTGAATT
1 ATAAATTGAATT
*
214994 ATAAATTCAATT
1 ATAAATTGAATT
215006 TAATTAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (12 bp):
ATAAATTGAATT
Found at i:220327 original size:44 final size:45
Alignment explanation
Indices: 220278--220362 Score: 154
Period size: 44 Copynumber: 1.9 Consensus size: 45
220268 AAGAAAGTAA
220278 AAACCCTAACTGAAAGCAATTATAGAAAAGAAG-AAAGAAAAATG
1 AAACCCTAACTGAAAGCAATTATAGAAAAGAAGAAAAGAAAAATG
*
220322 AAACCCTAACTGAAAGCAATTATGGAAAAGAAGAAAAGAAA
1 AAACCCTAACTGAAAGCAATTATAGAAAAGAAGAAAAGAAA
220363 GGGGAAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 32 0.82
45 7 0.18
ACGTcount: A:0.59, C:0.12, G:0.16, T:0.13
Consensus pattern (45 bp):
AAACCCTAACTGAAAGCAATTATAGAAAAGAAGAAAAGAAAAATG
Found at i:225744 original size:45 final size:45
Alignment explanation
Indices: 225681--225777 Score: 131
Period size: 45 Copynumber: 2.1 Consensus size: 45
225671 ACGGAGATCT
* * * *
225681 AGAAGAAGAAAGTAGAAACCCTAACTAAAAGTAATTATATAAAAGA
1 AGAA-AAGAAAGGAGAAACCCTAACTAAAAGAAATTATAGAAAAAA
* *
225727 AGAAAAGAAAGGGGAAACCCTAACTGAAAGAAATTATAGAAAAAA
1 AGAAAAGAAAGGAGAAACCCTAACTAAAAGAAATTATAGAAAAAA
225772 AGAAAA
1 AGAAAA
225778 AAAAAGGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
45 41 0.91
46 4 0.09
ACGTcount: A:0.61, C:0.08, G:0.18, T:0.13
Consensus pattern (45 bp):
AGAAAAGAAAGGAGAAACCCTAACTAAAAGAAATTATAGAAAAAA
Found at i:228208 original size:31 final size:31
Alignment explanation
Indices: 228170--228229 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
228160 TTTAATAGTC
228170 GTGATAGTTCAAAACACCTAAAAGTATAATT
1 GTGATAGTTCAAAACACCTAAAAGTATAATT
228201 GTGATAGTTCAAAACACCTAAAAGTATAA
1 GTGATAGTTCAAAACACCTAAAAGTATAA
228230 CGTTATAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (31 bp):
GTGATAGTTCAAAACACCTAAAAGTATAATT
Found at i:228760 original size:16 final size:16
Alignment explanation
Indices: 228715--228761 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
228705 GTATTACCCA
228715 ACATGTTTTCAACCTG
1 ACATGTTTTCAACCTG
* * *
228731 ACCTGTTATGAACCTG
1 ACATGTTTTCAACCTG
*
228747 ACATGTTTTTAACCT
1 ACATGTTTTCAACCT
228762 AATATGATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (16 bp):
ACATGTTTTCAACCTG
Found at i:229038 original size:23 final size:23
Alignment explanation
Indices: 229011--229054 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
229001 AGGAAATTTA
229011 ATATAGTTTAATTTATATAAATT
1 ATATAGTTTAATTTATATAAATT
*
229034 ATATAGTTTAATTTATCTAAA
1 ATATAGTTTAATTTATATAAA
229055 GAAAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (23 bp):
ATATAGTTTAATTTATATAAATT
Found at i:229232 original size:7 final size:7
Alignment explanation
Indices: 229216--229266 Score: 75
Period size: 7 Copynumber: 7.3 Consensus size: 7
229206 TCTATTTACA
229216 TTAGGGT
1 TTAGGGT
*
229223 TTATGGT
1 TTAGGGT
*
229230 TTAGTGT
1 TTAGGGT
229237 TTAGGGT
1 TTAGGGT
229244 TTAGGGT
1 TTAGGGT
*
229251 TTAGGGC
1 TTAGGGT
229258 TTAGGGT
1 TTAGGGT
229265 TT
1 TT
229267 TTATAAACTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.14, C:0.02, G:0.37, T:0.47
Consensus pattern (7 bp):
TTAGGGT
Found at i:229356 original size:2 final size:2
Alignment explanation
Indices: 229351--229387 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
229341 TTATATAGTT
229351 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
229388 CATGGTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:229759 original size:21 final size:21
Alignment explanation
Indices: 229741--229812 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
229731 TACATTAGGT
*
229741 TTTAGGGTTTATGGTTT-AGCA
1 TTTAGGGTTTATGGTTTAAG-G
** *
229762 TTTAGTATTTATGGTTTAAAG
1 TTTAGGGTTTATGGTTTAAGG
* *
229783 TTTATGGTTTATGATTTAAGG
1 TTTAGGGTTTATGGTTTAAGG
229804 TTTAGGGTT
1 TTTAGGGTT
229813 CCTATAATTT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.22, C:0.01, G:0.25, T:0.51
Consensus pattern (21 bp):
TTTAGGGTTTATGGTTTAAGG
Found at i:229891 original size:2 final size:2
Alignment explanation
Indices: 229886--229923 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
229876 AGTAATTTAC
229886 TA TA TA TA 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
229924 GAGAGAGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:229977 original size:20 final size:20
Alignment explanation
Indices: 229949--230003 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
229939 AGAGAGGTTA
*
229949 TATATATAGTTTATATTTAC
1 TATACATAGTTTATATTTAC
229969 TATACATAGTTTATATTTAC
1 TATACATAGTTTATATTTAC
*
229989 TATACATGGTTTATA
1 TATACATAGTTTATA
230004 CATACATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (20 bp):
TATACATAGTTTATATTTAC
Found at i:230383 original size:14 final size:14
Alignment explanation
Indices: 230361--230432 Score: 72
Period size: 14 Copynumber: 5.1 Consensus size: 14
230351 TTCATATATA
230361 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
* *
230375 TTAGTGTTTATGAT
1 TTAGGGTTTATGGT
* *
230389 TTAAGGTTTAGGGT
1 TTAGGGTTTATGGT
**
230403 TTAGGGTTTATAAT
1 TTAGGGTTTATGGT
* *
230417 TTAGAGTTTAGGGT
1 TTAGGGTTTATGGT
230431 TT
1 TT
230433 CTATAATTTA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 44 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:230397 original size:28 final size:27
Alignment explanation
Indices: 230365--230432 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 27
230355 TATATATTAG
* * *
230365 GGTTTATGGTTTAGTGTTTATGATTTAA
1 GGTTTAGGGTTTAGGGTTTATAATTT-A
230393 GGTTTAGGGTTTAGGGTTTATAATTTA
1 GGTTTAGGGTTTAGGGTTTATAATTTA
230420 GAGTTTAGGGTTT
1 G-GTTTAGGGTTT
230433 CTATAATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.06
28 34 0.94
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (27 bp):
GGTTTAGGGTTTAGGGTTTATAATTTA
Found at i:230529 original size:17 final size:16
Alignment explanation
Indices: 230507--230549 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
230497 TAATTTACTT
230507 TATATAGTTTGTATATA
1 TATATAGTTT-TATATA
*
230524 TATATAG-GTTATATA
1 TATATAGTTTTATATA
230539 TATATAGTTTT
1 TATATAGTTTT
230550 TACATACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 13 0.57
16 3 0.13
17 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TATATAGTTTTATATA
Found at i:230996 original size:7 final size:7
Alignment explanation
Indices: 230930--230997 Score: 55
Period size: 7 Copynumber: 9.7 Consensus size: 7
230920 TCTATTTATA
230930 TTAGGGT
1 TTAGGGT
*
230937 TTAAGGT
1 TTAGGGT
*
230944 TTAGTGT
1 TTAGGGT
*
230951 TTAGTGT
1 TTAGGGT
**
230958 TTAAAGT
1 TTAGGGT
**
230965 TTAAAGT
1 TTAGGGT
*
230972 TTATGGT
1 TTAGGGT
*
230979 TTAGGAT
1 TTAGGGT
230986 TTAGGGT
1 TTAGGGT
230993 TTAGG
1 TTAGG
230998 ATTTCTATAA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (7 bp):
TTAGGGT
Found at i:230996 original size:14 final size:14
Alignment explanation
Indices: 230971--231001 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
230961 AAGTTTAAAG
*
230971 TTTATGGTTTAGGA
1 TTTAGGGTTTAGGA
230985 TTTAGGGTTTAGGA
1 TTTAGGGTTTAGGA
230999 TTT
1 TTT
231002 CTATAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (14 bp):
TTTAGGGTTTAGGA
Found at i:231103 original size:15 final size:13
Alignment explanation
Indices: 231076--231120 Score: 72
Period size: 13 Copynumber: 3.3 Consensus size: 13
231066 TAATTTACTT
231076 TATATAGTTTATA
1 TATATAGTTTATA
231089 TATATAAGTTATATA
1 TATAT-AGTT-TATA
231104 TATATAGTTTATA
1 TATATAGTTTATA
231117 TATA
1 TATA
231121 CAATACATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.43
14 8 0.27
15 9 0.30
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:231170 original size:23 final size:25
Alignment explanation
Indices: 231144--231201 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 25
231134 ATACATACAT
*
231144 ATTATATAAAATTATTT-AAT-AAA
1 ATTATATAAAAATATTTAAATGAAA
*
231167 ATTA-ATAAAAATATTTAAATGTAA
1 ATTATATAAAAATATTTAAATGAAA
231191 ATTATATAAAA
1 ATTATATAAAA
231202 CATGATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 11 0.37
23 7 0.23
24 6 0.20
25 6 0.20
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
ATTATATAAAAATATTTAAATGAAA
Found at i:231295 original size:565 final size:563
Alignment explanation
Indices: 229969--231714 Score: 2730
Period size: 565 Copynumber: 3.1 Consensus size: 563
229959 TTATATTTAC
* *
229969 TATACATAGTTTATATTTACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAA
1 TATATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAA
* *
230034 ATTAATAAACTTATTTAAATATAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTA
66 ATTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTA
230099 TGTCATATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAA
131 TGTCATATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAA
230164 TTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAAT
196 TTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAAT
* *
230229 AAGTAATAATAAAACCCAAAAATAAGTCCATTTACAATAGTGCTAGTCTATTTACATTAATTTAC
261 AAGTAATAATAAAACCCAAAAATAAGTCCATTTGCAATAGTGCTAGTCTATTTACATTAGTTTAC
* *
230294 ATAGGCCCAATACATAAGTCCACTCTTTTATTACAAATATATATGTATTAGTGCTAGT-TCATAT
326 ATAGGCCCAATACATAAGTCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCT-ATTT
* * * * *
230358 ATATTAGGGTTTATGGTTTAGTGTTTATGATTTAAGGTTTAGGGTTTAGGGTTTATAATTTAGAG
390 ATATTAGGGTTTATGGTTTAGTGTTTATG-TTTAAAGTTTAAGGTTTATGGTTTA-GATTTAGGG
* * *
230423 TTTAGGGTTTCTATAATTTATATACTTTATTACTTTATATAGTTTATGCATAGTGCTTCTATAAA
453 TTTAGGATTTCTATAATTTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAA
*
230488 CCATATAAGTAATTTACTTTATATAGTTTGTATATATATATAGGTTATA
518 CTATATAAGTAATTTACTTTATATAG-TT-TATATATATATA-GTTATA
* *
230537 TATATATAGTTTTTACATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAA
1 TATATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAA
* * * *
230602 AATAATAATATTATATAAATGTAAATTATATAAAACATGATTAATTATGTGTTAAATAATTAGTA
66 ATTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTA
* *
230667 TGTCACATTGCATATTATATGATTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAA
131 TGTCATATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAA
* *
230732 TTAGTATTTTAGTTACATGTTAGGTTAATTCACATTAGTAGCCCATTTATTTTGTTGTTATGAAT
196 TTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAAT
* * * *
230797 AAGTAATAATAAAATCAAAAAATAAGTCCATTTGCGATAATGCTAGTCTATTTACATTATGTTTA
261 AAGTAATAATAAAACCCAAAAATAAGTCCATTTGCAATAGTGCTAGTCTATTTACATTA-GTTTA
* * *
230862 TATAGGCCCAATACATAAG-CTCACTCTTTTATTACAAATATATATGCATTAGGGTTAGTCTATT
325 CATAGGCCCAATACATAAGTC-CACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCTATT
* *
230926 TATATTAGGGTTTAAGGTTTAGTGTTTAGTGTTTAAAGTTTAAAGTTTATGGTTTAGGATTTAGG
389 TATATTAGGGTTTATGGTTTAGTGTTTA-TGTTTAAAGTTTAAGGTTTATGGTTTA-GATTTAGG
230991 GTTTAGGATTTCTATAATTTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAA
452 GTTTAGGATTTCTATAATTTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAA
* *
231056 ACTGTATATGTAATTTACTTTATATAGTTTATATATATA-AGTTATA
517 ACTATATAAGTAATTTACTTTATATAGTTTATATATATATAGTTATA
*
231102 TATATATAGTTTATATATACAATACATGGTTTATACATACATATTATATAAAATTATTTAATAAA
1 TATATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAA
* *
231167 ATTAATAAAAATATTTAAATGTAAATTATATAAAACATGATTAAATAGGTGTTAAATAATTAGTA
66 ATTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTA
* *
231232 TGTCATATTGCATATTATATGGTTCATAAATAGTAGTACATGCCGTATTAATTTCATTTGCATAA
131 TGTCATATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAA
*
231297 TTAGTATTTTAATTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAAT
196 TTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAAT
* *
231362 AAGTAATAATAAAACCCAAAAATAAGTCCATTTGCAATAGTACTAGTCCATTTACATTAGTTTAC
261 AAGTAATAATAAAACCCAAAAATAAGTCCATTTGCAATAGTGCTAGTCTATTTACATTAGTTTAC
* * * *
231427 ATAGGTCCAATACATAAGTCCACTCTTTTATTGCAAATATATATGCATTAATGCTGGTCTATTTA
326 ATAGGCCCAATACATAAGTCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCTATTTA
* * **
231492 TATTAGAGCTTATGGTTTATGGTTAAGTATTTATGGTTTAAAGTTT-AGGATTTATAATTTAGAG
391 TATT--AG-----GGTTTATGGTTTAGTGTTTAT-GTTTAAAGTTTAAGG-TTTATGGTTTAGA-
** *
231556 TTTAGGGTTTA-GAGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTATT
446 TTTAGGGTTTAGGA-TTTCTATAATTTATATATTTTATTACTTTATATAGTTTATGCATAGTGTT
* *
231620 TATATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATAGGT-TA
510 TCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATAGTTATA
231673 TATATATAGTTTATATATACTATACATGGTTTATACATACAT
1 TATATATAGTTTATATATACTATACATGGTTTATACATACAT
231715 GTACTATAAG
Statistics
Matches: 1079, Mismatches: 82, Indels: 31
0.91 0.07 0.03
Matches are distributed among these distances:
564 66 0.06
565 304 0.28
566 3 0.00
567 10 0.01
568 303 0.28
569 199 0.18
570 10 0.01
571 181 0.17
572 3 0.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (563 bp):
TATATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAA
ATTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTA
TGTCATATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAA
TTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAAT
AAGTAATAATAAAACCCAAAAATAAGTCCATTTGCAATAGTGCTAGTCTATTTACATTAGTTTAC
ATAGGCCCAATACATAAGTCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCTATTTA
TATTAGGGTTTATGGTTTAGTGTTTATGTTTAAAGTTTAAGGTTTATGGTTTAGATTTAGGGTTT
AGGATTTCTATAATTTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTA
TATAAGTAATTTACTTTATATAGTTTATATATATATAGTTATA
Found at i:231544 original size:21 final size:21
Alignment explanation
Indices: 231501--231566 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
231491 ATATTAGAGC
** * *
231501 TTATGGTTTATGGTTAAGTAT
1 TTATGGTTTAAAGTTTAGGAT
231522 TTATGGTTTAAAGTTTAGGAT
1 TTATGGTTTAAAGTTTAGGAT
** * *
231543 TTATAATTTAGAGTTTAGGGT
1 TTATGGTTTAAAGTTTAGGAT
231564 TTA
1 TTA
231567 GAGTTTCTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (21 bp):
TTATGGTTTAAAGTTTAGGAT
Found at i:231665 original size:13 final size:13
Alignment explanation
Indices: 231647--231691 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
231637 TAATTTACTT
231647 TATATAGTTTATATA
1 TATATAG-TT-TATA
*
231662 TATATAGGTTATA
1 TATATAGTTTATA
231675 TATATAGTTTATA
1 TATATAGTTTATA
231688 TATA
1 TATA
231692 CTATACATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 20 0.71
14 1 0.04
15 7 0.25
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:231667 original size:15 final size:15
Alignment explanation
Indices: 231647--231696 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
231637 TAATTTACTT
231647 TATATAGTTTATATA
1 TATATAGTTTATATA
*
231662 TATATAG-GT-TATA
1 TATATAGTTTATATA
231675 TATATAGTTTATATA
1 TATATAGTTTATATA
231690 TACTATA
1 TA-TATA
231697 CATGGTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 11 0.37
14 2 0.07
15 13 0.43
16 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:231696 original size:20 final size:21
Alignment explanation
Indices: 231672--231735 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
231662 TATATAGGTT
231672 ATATATATAGTTTATATATAC
1 ATATATATAGTTTATATATAC
* * *
231693 -TATACATGGTTTATACATAC
1 ATATATATAGTTTATATATAC
*
231713 ATGTACTATAAGTTATATATATA
1 ATATA-TAT-AGTT-TATATATA
231736 GTTTAGAGGT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
20 17 0.53
21 3 0.09
22 2 0.06
23 3 0.09
24 7 0.22
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (21 bp):
ATATATATAGTTTATATATAC
Found at i:231759 original size:21 final size:20
Alignment explanation
Indices: 231735--231816 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 20
231725 TTATATATAT
231735 AGTTTAGAGGTTAGGGTTTAG
1 AGTTTAG-GGTTAGGGTTTAG
* *
231756 AGTTAAGGGTTAAAGGTTTAG
1 AGTTTAGGGTT-AGGGTTTAG
* **
231777 GGTTTATGAATTAGGGTTTAG
1 AGTTTA-GGGTTAGGGTTTAG
*
231798 GGTTTAGGGTTTAGGGTTT
1 AGTTTAGGG-TTAGGGTTT
231817 TATAAAATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
20 5 0.10
21 41 0.84
22 3 0.06
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (20 bp):
AGTTTAGGGTTAGGGTTTAG
Found at i:231816 original size:14 final size:14
Alignment explanation
Indices: 231736--231816 Score: 83
Period size: 14 Copynumber: 5.8 Consensus size: 14
231726 TATATATATA
231736 GTTTAGAGG-TTAGG
1 GTTTAG-GGTTTAGG
* *
231750 GTTTAGAGTTAAGG
1 GTTTAGGGTTTAGG
* *
231764 GTTAAAGGTTTAGG
1 GTTTAGGGTTTAGG
* **
231778 GTTTATGAATTAGG
1 GTTTAGGGTTTAGG
231792 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAGG
231806 GTTTAGGGTTT
1 GTTTAGGGTTT
231817 TATAAAATAT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
13 1 0.02
14 52 0.98
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (14 bp):
GTTTAGGGTTTAGG
Found at i:231876 original size:2 final size:2
Alignment explanation
Indices: 231865--231911 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
231855 ATAGTGTTTC
231865 TA TA -A TA TA TA 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
231906 TA TA TA
1 TA TA TA
231912 GAGAGAGAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:231916 original size:2 final size:2
Alignment explanation
Indices: 231911--231952 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
231901 ATATATATAT
* * *
231911 AG AG AG AG AG AG AG AG AG AG AG AG -G GG GG AG GG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
231952 A
1 A
231953 AAATTAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (2 bp):
AG
Found at i:232166 original size:19 final size:19
Alignment explanation
Indices: 232136--232190 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
232126 AATAAAATTT
232136 AAATTCTCAATTTCCCTCC
1 AAATTCTCAATTTCCCTCC
* * * *
232155 AATTTCTTAATTTCTCTCT
1 AAATTCTCAATTTCCCTCC
232174 AAATTCTCAATTTCCCT
1 AAATTCTCAATTTCCCT
232191 TTATTTTCAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATTCTCAATTTCCCTCC
Found at i:232205 original size:38 final size:38
Alignment explanation
Indices: 232135--232217 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
232125 AAATAAAATT
** **
232135 TAAATTCTCAATTTCCCTCCAATTTCTTAATTTCTCTC
1 TAAATTCTCAATTTCCCTCCAATTTCAAAATTTCTCAA
** *
232173 TAAATTCTCAATTTCCCTTTATTTTCAAAATTTCTCAA
1 TAAATTCTCAATTTCCCTCCAATTTCAAAATTTCTCAA
232211 TAAATTC
1 TAAATTC
232218 CCAAATAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (38 bp):
TAAATTCTCAATTTCCCTCCAATTTCAAAATTTCTCAA
Found at i:232298 original size:2 final size:2
Alignment explanation
Indices: 232291--232495 Score: 55
Period size: 2 Copynumber: 106.0 Consensus size: 2
232281 ACTTTGAATA
232291 AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT A- AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
232329 AGT TT AT AA ACT AT AT AT -T TT TT AT AGT TT AT AC AT AT AT A-
1 A-T AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * * * *
232370 AT TT AC AT AT AT AGT TT AT AT AT AT AGT -T CAT AT AA AC AT A-
1 AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT -AT AT AT AT AT AT
* * * *
232411 AT TT AT AT AT AT AG CT -T AT A- AT A- AT -T AT AT AGT TT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * *
232449 AT AT AA AT AT AGT TT AT AT AT AA ACT -T AT AT -T AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
232491 -T AT AT
1 AT AT AT
232496 TTTTTTCAAT
Statistics
Matches: 147, Mismatches: 31, Indels: 50
0.64 0.14 0.22
Matches are distributed among these distances:
1 16 0.11
2 123 0.84
3 8 0.05
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:232329 original size:28 final size:27
Alignment explanation
Indices: 232289--232423 Score: 78
Period size: 28 Copynumber: 4.7 Consensus size: 27
232279 TCACTTTGAA
*
232289 TAATATATATATATATATATATATATAT
1 TAATATA-ATTTATATATATATATATAT
* *
232317 TAATATAATTATAGTTTATAAACTATATATT
1 TAATATAATT-TA-TATATATA-TATATA-T
** * *
232348 TTTTATAGTTTATACATATATA-AT-T
1 TAATATAATTTATATATATATATATAT
232373 TACATATATAGTTTATATATATAGT-TCATAT
1 TA-ATATA-A-TTTATATATATA-TAT-ATAT
* *
232404 AAACATAATTTATATATATA
1 TAATATAATTTATATATATA
232424 GCTTATAATA
Statistics
Matches: 81, Mismatches: 15, Indels: 22
0.69 0.13 0.19
Matches are distributed among these distances:
25 2 0.02
26 4 0.05
27 4 0.05
28 34 0.42
29 13 0.16
30 14 0.17
31 10 0.12
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (27 bp):
TAATATAATTTATATATATATATATAT
Found at i:232396 original size:13 final size:13
Alignment explanation
Indices: 232294--232453 Score: 82
Period size: 13 Copynumber: 11.8 Consensus size: 13
232284 TTGAATAATA
*
232294 TATATATATA-TA
1 TATATATATAGTT
232306 TATATATATA-TT
1 TATATATATAGTT
*
232318 AATATAATTATAGTT
1 TATAT-A-TATAGTT
232333 TATAAACTATATA-TT
1 TAT--A-TATATAGTT
232348 T-T-T-TATAGTT
1 TATATATATAGTT
*
232358 TATACATATATAATT
1 TAT--ATATATAGTT
*
232373 TACATATATAGTT
1 TATATATATAGTT
232386 TATATATATAGTT
1 TATATATATAGTT
* * *
232399 CATATAAACATAATT
1 --TATATATATAGTT
232414 TATATATATAGCTT
1 TATATATATAG-TT
232428 ATAATAATTATATAGTT
1 -T-AT-A-TATATAGTT
232445 TATA-ATATA
1 TATATATATA
232454 AATATAGTTT
Statistics
Matches: 116, Mismatches: 13, Indels: 38
0.69 0.08 0.23
Matches are distributed among these distances:
9 4 0.03
10 4 0.03
11 1 0.01
12 20 0.17
13 30 0.26
14 9 0.08
15 28 0.24
16 7 0.06
17 5 0.04
18 8 0.07
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (13 bp):
TATATATATAGTT
Done.