Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008895.1 Hibiscus syriacus cultivar Beakdansim tig00112164_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: 106631
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:404 original size:20 final size:20
Alignment explanation
Indices: 375--412 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
365 TTTGGTTCAC
375 GGAATATAAGATTACCAGTG
1 GGAATATAAGATTACCAGTG
*
395 GGAATGTAAGATTACCAG
1 GGAATATAAGATTACCAG
413 GGAATAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (20 bp):
GGAATATAAGATTACCAGTG
Found at i:417 original size:18 final size:19
Alignment explanation
Indices: 375--418 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
365 TTTGGTTCAC
375 GGAATATAAGATTACCAGTG
1 GGAATATAAGATTACCAG-G
*
395 GGAATGTAAGATTACCA-G
1 GGAATATAAGATTACCAGG
413 GGAATA
1 GGAATA
419 GGATTACTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
20 16 0.73
ACGTcount: A:0.41, C:0.09, G:0.27, T:0.23
Consensus pattern (19 bp):
GGAATATAAGATTACCAGG
Found at i:1807 original size:6 final size:6
Alignment explanation
Indices: 1797--1858 Score: 85
Period size: 6 Copynumber: 10.8 Consensus size: 6
1787 TCATCTCTTT
* *
1797 TTCTCT TTCTCT TTCTCC -TC--C TTCTCC TTCTCC TTCTCC TTCTCC
1 TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC
1842 TTCTCC TTCTCC TTCTC
1 TTCTCC TTCTCC TTCTC
1859 TTTCATTCTC
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 2 0.04
6 47 0.90
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (6 bp):
TTCTCC
Found at i:3804 original size:60 final size:58
Alignment explanation
Indices: 3700--3871 Score: 213
Period size: 60 Copynumber: 2.9 Consensus size: 58
3690 TATATTACTG
* * *
3700 AAATGTTCAAAAGTTTGGGGATTAATTTAGAATAAGGTTGATAATTTGAGGATGAAATTA
1 AAATGTTCAAAAGTTTGAGAATTAATTTAGAATAA-G-TCATAATTTGAGGATGAAATTA
* *
3760 AAATGTTCAAAAGTTTGAGAATCAATTCAGAATGGAAGTCATAATTT-AGGGATGAAATTA
1 AAATGTTCAAAAGTTTGAGAATTAATTTAGAAT--AAGTCATAATTTGA-GGATGAAATTA
* *
3820 AAATGTTCAAAAGTTT-AGGAATTAATTTAAAATAAGCCATAATTTGAGGATG
1 AAATGTTCAAAAGTTTGA-GAATTAATTTAGAATAAGTCATAATTTGAGGATG
3872 TATATTTCAA
Statistics
Matches: 98, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
58 16 0.16
59 3 0.03
60 76 0.78
61 1 0.01
62 2 0.02
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (58 bp):
AAATGTTCAAAAGTTTGAGAATTAATTTAGAATAAGTCATAATTTGAGGATGAAATTA
Found at i:7137 original size:10 final size:9
Alignment explanation
Indices: 7122--7177 Score: 67
Period size: 10 Copynumber: 5.7 Consensus size: 9
7112 CACGCTGGGT
7122 ATCCGAGGTC
1 ATCCGAGG-C
7132 ATCCGAGAGC
1 ATCCGAG-GC
7142 ATCCGAGGCC
1 ATCCGAGG-C
7152 ATCCGAGAGC
1 ATCCGAG-GC
7162 ATCCGAGGAC
1 ATCCGAGG-C
7172 ATCCGA
1 ATCCGA
7178 CCGAGGCCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.05
10 38 0.90
11 2 0.05
ACGTcount: A:0.27, C:0.32, G:0.29, T:0.12
Consensus pattern (9 bp):
ATCCGAGGC
Found at i:7147 original size:20 final size:20
Alignment explanation
Indices: 7122--7177 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
7112 CACGCTGGGT
*
7122 ATCCGAGGTCATCCGAGAGC
1 ATCCGAGGACATCCGAGAGC
*
7142 ATCCGAGGCCATCCGAGAGC
1 ATCCGAGGACATCCGAGAGC
7162 ATCCGAGGACATCCGA
1 ATCCGAGGACATCCGA
7178 CCGAGGCCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.27, C:0.32, G:0.29, T:0.12
Consensus pattern (20 bp):
ATCCGAGGACATCCGAGAGC
Found at i:7187 original size:34 final size:37
Alignment explanation
Indices: 7144--7214 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
7134 CCGAGAGCAT
*
7144 CCGAGGCCATCC-GA-GAGC-ATCCGAGGACATCCGA
1 CCGAGGCCATCCAAACGAGCTATCCGAGGACATCCGA
*
7178 CCGAGGCCATCCAAACGAGCTATGCGAGGACATCCGA
1 CCGAGGCCATCCAAACGAGCTATCCGAGGACATCCGA
7215 GGGCAACCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
34 12 0.38
35 1 0.03
36 4 0.12
37 15 0.47
ACGTcount: A:0.28, C:0.34, G:0.28, T:0.10
Consensus pattern (37 bp):
CCGAGGCCATCCAAACGAGCTATCCGAGGACATCCGA
Found at i:7314 original size:29 final size:29
Alignment explanation
Indices: 7266--7350 Score: 134
Period size: 29 Copynumber: 2.9 Consensus size: 29
7256 GAGCGAGGGT
* * *
7266 AGGTCGCCCGGAGTGTATGGCAACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
7295 AGGTCGCCCGGAGGGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
*
7324 AGATCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
7351 TGTGTTGGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.22, C:0.29, G:0.35, T:0.13
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:7454 original size:29 final size:29
Alignment explanation
Indices: 7409--7465 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
7399 GAGCAAGGGT
*
7409 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAATGCATGGCGACCTACA
7438 AGGTCGCCCGGAATGCATGGCGACCTAC
1 AGGTCGCCCGGAATGCATGGCGACCTAC
7466 GACCAACACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.32, G:0.33, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAATGCATGGCGACCTACA
Found at i:8852 original size:44 final size:43
Alignment explanation
Indices: 8795--8878 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 43
8785 ATGCGCAGCT
* *
8795 AAAAATATATATTTTAGATT-GAATATAACATAAAATATTAAGA
1 AAAAAAATATATTTTAAATTAGAAT-TAACATAAAATATTAAGA
*
8838 AAAAAAATAGTATTTTAAATTATAATTAACATAAAATATTA
1 AAAAAAATA-TATTTTAAATTAGAATTAACATAAAATATTA
8879 TATTTTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 8 0.22
44 25 0.69
45 3 0.08
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (43 bp):
AAAAAAATATATTTTAAATTAGAATTAACATAAAATATTAAGA
Found at i:9373 original size:36 final size:37
Alignment explanation
Indices: 9333--9414 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
9323 ATTAAATATT
* *
9333 TTTTATATTTTTAATTTTGTAAAAAAAT-TATATAA-A
1 TTTTATAATTTAAATTTTGTAAAAAAATGTATA-AATA
* *
9369 TTTTATGAATTTAAATTTTTTTAAAAAATGTATAAATA
1 TTTTAT-AATTTAAATTTTGTAAAAAAATGTATAAATA
9407 TTTTATAA
1 TTTTATAA
9415 CTTGTAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
36 6 0.15
37 22 0.56
38 11 0.28
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (37 bp):
TTTTATAATTTAAATTTTGTAAAAAAATGTATAAATA
Found at i:9872 original size:20 final size:20
Alignment explanation
Indices: 9847--9884 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9837 TTTGGTTCAC
9847 GGAATATAAA-ATTATCAGTG
1 GGAATA-AAAGATTATCAGTG
9867 GGAATAAAAGATTATCAG
1 GGAATAAAAGATTATCAG
9885 GAAATTAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.26
Consensus pattern (20 bp):
GGAATAAAAGATTATCAGTG
Found at i:12210 original size:10 final size:10
Alignment explanation
Indices: 12171--12220 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
12161 TTCATCACAC
12171 CAAATTCTCT
1 CAAATTCTCT
*
12181 CAATTTCTCT
1 CAAATTCTCT
*
12191 CAACTTCTCT
1 CAAATTCTCT
*
12201 CAAATACTCT
1 CAAATTCTCT
* *
12211 TATATTCTCT
1 CAAATTCTCT
12221 GTTTAAAGTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:12268 original size:9 final size:9
Alignment explanation
Indices: 12256--12289 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
12246 TAATATTTTG
12256 TATTTAATT
1 TATTTAATT
*
12265 TATTTAA-G
1 TATTTAATT
12273 TATTTAATT
1 TATTTAATT
12282 TATTTAAT
1 TATTTAAT
12290 ATTTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:12295 original size:17 final size:17
Alignment explanation
Indices: 12255--12293 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
12245 TTAATATTTT
12255 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
12272 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
12289 -TATTT
1 GTATTT
12294 TACTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:15991 original size:12 final size:13
Alignment explanation
Indices: 15968--15996 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15958 TTATGGATAG
15968 TTTTCTTCCTTTT
1 TTTTCTTCCTTTT
15981 TTTTCTT-CTTTT
1 TTTTCTTCCTTTT
15993 TTTT
1 TTTT
15997 GCAGTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTCCTTTT
Found at i:18281 original size:29 final size:29
Alignment explanation
Indices: 18238--18320 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
18228 CTCACCTAAC
18238 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
18268 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
18297 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
18321 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:23047 original size:29 final size:29
Alignment explanation
Indices: 23004--23086 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
22994 CTCACCTAAC
23004 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
23034 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
23063 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
23087 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:27302 original size:23 final size:23
Alignment explanation
Indices: 27275--27321 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
27265 CGATATTGAA
27275 CTTGATATTGAGCTCAATTCAAG
1 CTTGATATTGAGCTCAATTCAAG
**
27298 CTTGATATTGAGCTTGATTCAAG
1 CTTGATATTGAGCTCAATTCAAG
27321 C
1 C
27322 CACTAGCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (23 bp):
CTTGATATTGAGCTCAATTCAAG
Found at i:27313 original size:12 final size:12
Alignment explanation
Indices: 27266--27315 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
27256 TATTAAACTC
*
27266 GATATTGAACTT
1 GATATTGAGCTT
27278 GATATTGAGC-T
1 GATATTGAGCTT
* *
27289 CA-ATTCAAGCTT
1 GATATT-GAGCTT
27301 GATATTGAGCTT
1 GATATTGAGCTT
27313 GAT
1 GAT
27316 TCAAGCCACT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 3 0.10
11 5 0.17
12 19 0.63
13 3 0.10
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (12 bp):
GATATTGAGCTT
Found at i:28934 original size:7 final size:7
Alignment explanation
Indices: 28922--29017 Score: 93
Period size: 7 Copynumber: 13.7 Consensus size: 7
28912 TGGATTAAGT
28922 GTTTAGG
1 GTTTAGG
28929 GTTTAGG
1 GTTTAGG
*
28936 GTTTATG
1 GTTTAGG
*
28943 GTTTATG
1 GTTTAGG
**
28950 ACTTAGG
1 GTTTAGG
*
28957 GATTAGG
1 GTTTAGG
28964 GTTTAGG
1 GTTTAGG
28971 GTTTAGG
1 GTTTAGG
28978 GTTTAGG
1 GTTTAGG
* *
28985 ATTTATG
1 GTTTAGG
** *
28992 ACTTAAG
1 GTTTAGG
28999 GTTTAGG
1 GTTTAGG
*
29006 GTTTAAG
1 GTTTAGG
29013 GTTTA
1 GTTTA
29018 TAATTTAGAG
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 74 1.00
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:28970 original size:35 final size:35
Alignment explanation
Indices: 28924--29018 Score: 120
Period size: 35 Copynumber: 2.7 Consensus size: 35
28914 GATTAAGTGT
*
28924 TTAGGGTTTAGGGTTTATGGTTTATGACTTAGGGA-
1 TTAGGGTTTAGGGTTTAAGGTTTATGACTTA-GGAC
* * * *
28959 TTAGGGTTTAGGGTTTAGGGTTTAGGATTTATGAC
1 TTAGGGTTTAGGGTTTAAGGTTTATGACTTAGGAC
*
28994 TTAAGGTTTAGGGTTTAAGGTTTAT
1 TTAGGGTTTAGGGTTTAAGGTTTAT
29019 AATTTAGAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
34 2 0.04
35 50 0.96
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (35 bp):
TTAGGGTTTAGGGTTTAAGGTTTATGACTTAGGAC
Found at i:28973 original size:42 final size:42
Alignment explanation
Indices: 28913--29017 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
28903 TCACATAATT
* *
28913 GGATTAAGTGTTTAGGGTTTAGGGTTTATGG-TTTATGACTTAG
1 GGATT-AGGGTTTAGGGTTTAGGGTTTA-GGATTTATGACTTAA
28956 GGATTAGGGTTTAGGGTTTAGGGTTTAGGATTTATGACTTAA
1 GGATTAGGGTTTAGGGTTTAGGGTTTAGGATTTATGACTTAA
* *
28998 GGTTTAGGGTTTAAGGTTTA
1 GGATTAGGGTTTAGGGTTTA
29018 TAATTTAGAG
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
41 2 0.04
42 50 0.88
43 5 0.09
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.43
Consensus pattern (42 bp):
GGATTAGGGTTTAGGGTTTAGGGTTTAGGATTTATGACTTAA
Found at i:29030 original size:28 final size:28
Alignment explanation
Indices: 28965--29032 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
28955 GGGATTAGGG
* *
28965 TTTAGGGTTTAGGGTTTAGGATTTATGA
1 TTTAGAGTTTAGGGTTTAGGATTTATAA
*
28993 CTTA-AGGTTTAGGGTTTAAGG-TTTATAA
1 TTTAGA-GTTTAGGGTTT-AGGATTTATAA
29021 TTTAGAGTTTAG
1 TTTAGAGTTTAG
29033 AATTTAGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 29 0.88
29 4 0.12
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (28 bp):
TTTAGAGTTTAGGGTTTAGGATTTATAA
Found at i:29039 original size:35 final size:34
Alignment explanation
Indices: 28963--29042 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 34
28953 TAGGGATTAG
* * * *
28963 GGTTTAGGGTTTAGGGTTTAGGATTTATGACTTAA
1 GGTTTAGGGTTTAAGGTTTATGATTTA-GAGTTTA
*
28998 GGTTTAGGGTTTAAGGTTTATAATTTAGAGTTTA
1 GGTTTAGGGTTTAAGGTTTATGATTTAGAGTTTA
*
29032 GAATTTAGGGT
1 G-GTTTAGGGT
29043 GTAATCTAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 6 0.16
35 32 0.84
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (34 bp):
GGTTTAGGGTTTAAGGTTTATGATTTAGAGTTTA
Found at i:29136 original size:7 final size:7
Alignment explanation
Indices: 29113--29186 Score: 62
Period size: 7 Copynumber: 10.7 Consensus size: 7
29103 AATCGGATTA
29113 AGGGTTT
1 AGGGTTT
*
29120 AGAGTTT
1 AGGGTTT
29127 AGGGTTT
1 AGGGTTT
**
29134 AGGACTT
1 AGGGTTT
29141 AGGGTTT
1 AGGGTTT
* *
29148 ATGATTT
1 AGGGTTT
29155 -GGGATTT
1 AGGG-TTT
*
29162 GGGGTTT
1 AGGGTTT
29169 AGGGTTT
1 AGGGTTT
*
29176 A-GATTT
1 AGGGTTT
29182 AGGGT
1 AGGGT
29187 GTAATCTAAC
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
6 6 0.12
7 42 0.82
8 3 0.06
ACGTcount: A:0.19, C:0.01, G:0.38, T:0.42
Consensus pattern (7 bp):
AGGGTTT
Found at i:29147 original size:21 final size:21
Alignment explanation
Indices: 29117--29186 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
29107 GGATTAAGGG
*
29117 TTTAGAGTTTAGGGTTTAGGA
1 TTTAGGGTTTAGGGTTTAGGA
* * * *
29138 CTTAGGGTTTATGATTTGGGA
1 TTTAGGGTTTAGGGTTTAGGA
*
29159 TTTGGGGTTTAGGGTTTA-GA
1 TTTAGGGTTTAGGGTTTAGGA
29179 TTTAGGGT
1 TTTAGGGT
29187 GTAATCTAAC
Statistics
Matches: 38, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
20 9 0.24
21 29 0.76
ACGTcount: A:0.19, C:0.01, G:0.36, T:0.44
Consensus pattern (21 bp):
TTTAGGGTTTAGGGTTTAGGA
Found at i:31075 original size:50 final size:50
Alignment explanation
Indices: 30952--31075 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
30942 ACAGTAAAAT
* ** * *
30952 GCGCCCCTGCACCGCGCTATACAATGATTTGGCGCCACGTGGGGTATAGC
1 GCGCCCCTGCACCGCGCTATACGATGAGCTGACGCCACATGGGGTATAGC
* *
31002 GCGCCTCCTGAACCGCGCTATACGGTGAGCTGACGCCACAT-GGGTATAGC
1 GCGCC-CCTGCACCGCGCTATACGATGAGCTGACGCCACATGGGGTATAGC
*
31052 GCGGCCCCTGCAGCGCGCTATACG
1 GC-GCCCCTGCACCGCGCTATACG
31076 CCACGTAGGG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 32 0.51
51 31 0.49
ACGTcount: A:0.18, C:0.34, G:0.31, T:0.18
Consensus pattern (50 bp):
GCGCCCCTGCACCGCGCTATACGATGAGCTGACGCCACATGGGGTATAGC
Found at i:34747 original size:26 final size:26
Alignment explanation
Indices: 34718--34790 Score: 64
Period size: 26 Copynumber: 2.8 Consensus size: 26
34708 AAAGTCAAAC
**
34718 AAATTTAACAAAATAAAGTAAGTATT
1 AAATTTAACAAAATAAAGTAAAAATT
*
34744 AAA-TGAGA-AATAATAAA--AAAAATT
1 AAATTTA-ACAA-AATAAAGTAAAAATT
34768 ACAATTTAACAAAATAAAGTAAA
1 A-AATTTAACAAAATAAAGTAAA
34791 TACAAATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 13
0.68 0.08 0.25
Matches are distributed among these distances:
24 6 0.17
25 13 0.36
26 14 0.39
27 3 0.08
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (26 bp):
AAATTTAACAAAATAAAGTAAAAATT
Found at i:37074 original size:20 final size:19
Alignment explanation
Indices: 37046--37084 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
37036 CCTTAAAAAG
*
37046 AGAGTATTTGAGAGAAATTT
1 AGAGAATTTGAGA-AAATTT
37066 AGAGAATTTGAGAAAATTT
1 AGAGAATTTGAGAAAATTT
37085 GGTGTGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (19 bp):
AGAGAATTTGAGAAAATTT
Found at i:37250 original size:50 final size:51
Alignment explanation
Indices: 37196--37322 Score: 166
Period size: 51 Copynumber: 2.5 Consensus size: 51
37186 AGATATACAG
* * * * **
37196 GTATAGCGCGCTGCAGGGGCCGCGCTATA-CCCACGTGGCGCCAGCTCATC
1 GTATAGCGCGGTACAGGGGGCGCGCTATACCCCACGTGCCGCCAAATCATC
* * *
37246 GTATAGCGCGGTTCAGGGGGCGTGCTATACCCCACGTTCCGCCAAATCATC
1 GTATAGCGCGGTACAGGGGGCGCGCTATACCCCACGTGCCGCCAAATCATC
37297 GTATAGCGCGGTACAGGGGGCGCGCT
1 GTATAGCGCGGTACAGGGGGCGCGCT
37323 TTACTGCTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 25 0.38
51 41 0.62
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.18
Consensus pattern (51 bp):
GTATAGCGCGGTACAGGGGGCGCGCTATACCCCACGTGCCGCCAAATCATC
Found at i:46208 original size:20 final size:20
Alignment explanation
Indices: 46185--46252 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 20
46175 TAGTATTTAA
46185 ATAAAT-TTATTAATAATTTT
1 ATAAATCTT-TTAATAATTTT
*
46205 AT-AATCTTTTAATAAATTTA
1 ATAAATCTTTTAAT-AATTTT
* *
46225 ATAAGTGTTTT-ATAATTTT
1 ATAAATCTTTTAATAATTTT
*
46244 TTAAA-CTTT
1 ATAAATCTTT
46253 ATTTACGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 16 0.42
20 13 0.34
21 6 0.16
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (20 bp):
ATAAATCTTTTAATAATTTT
Found at i:46218 original size:19 final size:20
Alignment explanation
Indices: 46194--46243 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
46184 AATAAATTTA
46194 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTCTT
* *
46213 TTAATAAATTTAATAAGTGTT
1 TTAAT-AATTTTATAAGTCTT
46234 TT-ATAATTTT
1 TTAATAATTTT
46244 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTCTT
Found at i:46236 original size:31 final size:30
Alignment explanation
Indices: 46161--46247 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 30
46151 TTCGATAATA
* *
46161 TAATAATTATTTTATAGTATTTAAATAAATT
1 TAATAA-TATTTTATAATATTTTAATAAATT
* *
46192 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATATTTTAATAAATT
* *
46223 TAATAAGTGTTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATATTTTAA
46248 ACTTTATTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 1 0.02
31 45 0.96
32 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TAATAATATTTTATAATATTTTAATAAATT
Found at i:47026 original size:31 final size:31
Alignment explanation
Indices: 46968--47035 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
46958 TAAATAAAGT
*
46968 TTAAAAAATTATAAAACACTTATTAAATTTA
1 TTAAAAAATTATAAAACACTTAATAAATTTA
* *
46999 TTAAAAGATTATAAAATTA-TTAATAAATTTA
1 TTAAAAAATTATAAAA-CACTTAATAAATTTA
47030 TCTAAA
1 T-TAAA
47036 TACTATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 27 0.84
32 5 0.16
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (31 bp):
TTAAAAAATTATAAAACACTTAATAAATTTA
Found at i:47030 original size:20 final size:20
Alignment explanation
Indices: 46967--47030 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
46957 GTAAATAAAG
*
46967 TTTAAAAAATTA-TAAAACA
1 TTTATAAAATTATTAAAACA
* * *
46986 CTTATTAAATTTATTAAAAGA
1 TTTA-TAAAATTATTAAAACA
47007 -TTATAAAATTATTAATAA-A
1 TTTATAAAATTATTAA-AACA
47026 TTTAT
1 TTTAT
47031 CTAAATACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
19 15 0.42
20 15 0.42
21 6 0.17
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTATAAAATTATTAAAACA
Found at i:47043 original size:31 final size:31
Alignment explanation
Indices: 46968--47051 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 31
46958 TAAATAAAGT
* * * * *
46968 TTAAAAAATTATAAAACACTTATTAAATTTA
1 TTAAAAGACTATAAAATAATTAATAAATTTA
* *
46999 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAGACTATAAAATAATTAATAAATTTA
*
47030 TCT-AAATACTATAAAATAATTA
1 T-TAAAAGACTATAAAATAATTA
47052 TTATATTATC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 43 0.98
32 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (31 bp):
TTAAAAGACTATAAAATAATTAATAAATTTA
Found at i:54676 original size:24 final size:24
Alignment explanation
Indices: 54625--54678 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
54615 GAACGTTTGG
* *
54625 TTATGTTCGTTTATGTTCGTTCGA
1 TTATGTGCGTTTATGTTCATTCGA
54649 TTATGTGCGTTTATGTTCATTC-A
1 TTATGTGCGTTTATGTTCATTCGA
54672 TTTATGT
1 -TTATGT
54679 TTAACACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.15, C:0.11, G:0.19, T:0.56
Consensus pattern (24 bp):
TTATGTGCGTTTATGTTCATTCGA
Found at i:55429 original size:16 final size:16
Alignment explanation
Indices: 55408--55474 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
55398 GTCTCCAACG
55408 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
55424 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
*
55440 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
55456 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
55470 TTTAT
1 TTTAT
55475 TAAATGAACG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 42 0.86
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:55447 original size:32 final size:32
Alignment explanation
Indices: 55406--55466 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
55396 GGGTCTCCAA
55406 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
*
55438 CGTTTATGTTCGTGTTCGTTTATGTTCGT
1 CGTTTATGTTCGTGTTCATTTATGTTCGT
55467 TTATTTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.08, C:0.13, G:0.23, T:0.56
Consensus pattern (32 bp):
CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
Found at i:58364 original size:28 final size:28
Alignment explanation
Indices: 58298--58352 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
58288 TGTGTGTGTG
* * *
58298 TATATATATATATATTGAAATTTGGATA
1 TATATACATATATATTGAAATTTAGACA
*
58326 TATATATATATATATTGAAATTTAGAC
1 TATATACATATATATTGAAATTTAGAC
58353 CAATGTACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (28 bp):
TATATACATATATATTGAAATTTAGACA
Found at i:61129 original size:17 final size:18
Alignment explanation
Indices: 61100--61150 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
61090 GTCTAAAATA
*
61100 AATATTTATTTATTATAT
1 AATATTTAATTATTATAT
*
61118 AA-ATTTAATTATTAAAT
1 AATATTTAATTATTATAT
* *
61135 AATCTTTAATCATTAT
1 AATATTTAATTATTAT
61151 GATTATAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATTTAATTATTATAT
Found at i:66930 original size:17 final size:18
Alignment explanation
Indices: 66908--66961 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
66898 TGAATTCATG
66908 AATATGAG-CATGTGTTT
1 AATATGAGACATGTGTTT
*
66925 AATATGAGTATATGTGTTT
1 AATATGAG-ACATGTGTTT
*
66944 AATATGAGTATATGTGTT
1 AATATGAG-ACATGTGTT
66962 ATAGGTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 8 0.24
19 26 0.76
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.44
Consensus pattern (18 bp):
AATATGAGACATGTGTTT
Found at i:66941 original size:19 final size:19
Alignment explanation
Indices: 66917--66961 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
66907 GAATATGAGC
66917 ATGTGTTTAATATGAGTAT
1 ATGTGTTTAATATGAGTAT
66936 ATGTGTTTAATATGAGTAT
1 ATGTGTTTAATATGAGTAT
66955 ATGTGTT
1 ATGTGTT
66962 ATAGGTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (19 bp):
ATGTGTTTAATATGAGTAT
Found at i:81117 original size:40 final size:41
Alignment explanation
Indices: 81073--81156 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 41
81063 ACGCATGAGT
* * **
81073 CGTGTCATCCTTCG-ACCAGATTTCCTCATCACGTAGGAAC
1 CGTGTCACCCTTAGAACCAGACGTCCTCATCACGTAGGAAC
*
81113 CGTGTCACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAAC
1 CGTGTCACCCTTAG--AACCAGACGTCCTCATCACGTAGGAAC
81156 C
1 C
81157 ATGTTATCAC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
40 12 0.33
43 24 0.67
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (41 bp):
CGTGTCACCCTTAGAACCAGACGTCCTCATCACGTAGGAAC
Found at i:81236 original size:130 final size:131
Alignment explanation
Indices: 80981--81337 Score: 387
Period size: 130 Copynumber: 2.7 Consensus size: 131
80971 TAGGAGCAAC
* * * *
80981 GTCAACATTAGATAACCAGCCATCCTCATCGCGTAGGAACCAAGTTATCACCCTTCCTAAAGATG
1 GTCAACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCA-CCTT--T-AAGATG
** * **
81046 GCCAAGAACTCTTCATCACGCATGAGTCGTGTCATCCTTCGACCAGATTTCCTCATCACGTAGGA
62 GCCAAGAACTCTTCATCACGCATGAGTAATGTCATCCATCGACCAGAACTCCTCATCACGTAGGA
81111 ACCGT
127 ACCGT
*
81116 GTCACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTT-AGATGGCCA
1 GTCAACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAAGATGGCCA
* * * * *
81180 AGAACTCTTCATCATGTATGAGTAATGTCATCCCAT-GACCAGAACTCTTCATCACGTATGAGCC
66 AGAACTCTTCATCACGCATGAGTAATGTCAT-CCATCGACCAGAACTCCTCATCACGTAGGAACC
81244 GT
130 GT
* * * * *
81246 GTCAACCTCAGATAACCAGCCGTCCCCAGCAGAGT-GGAACCATGTTATCATCTTTCCTAAAGAT
1 GTCAACCTTAGATAACCAGCCGTCCTCATCA-CGTAGGAACCATGTTATCA-CCTT--T-AAGAT
* * *
81310 GGCCAAGATTCTCTTCATCGCGGATGAG
61 GGCCAAGA-ACTCTTCATCACGCATGAG
81338 CAGTGTCGTC
Statistics
Matches: 189, Mismatches: 25, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
130 103 0.54
131 8 0.04
132 1 0.01
133 1 0.01
134 4 0.02
135 57 0.30
136 15 0.08
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (131 bp):
GTCAACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAAGATGGCCA
AGAACTCTTCATCACGCATGAGTAATGTCATCCATCGACCAGAACTCCTCATCACGTAGGAACCG
T
Found at i:84064 original size:12 final size:12
Alignment explanation
Indices: 84044--84073 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
84034 TATATGTATG
84044 TATGCAATTGTTA
1 TATG-AATTGTTA
84057 TATGAATTGTTA
1 TATGAATTGTTA
84069 TATGA
1 TATGA
84074 TTTTGTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (12 bp):
TATGAATTGTTA
Found at i:84426 original size:16 final size:17
Alignment explanation
Indices: 84399--84433 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
84389 ATTTTCATTA
84399 TTTTGTAAAAGTTAATG
1 TTTTGTAAAAGTTAATG
84416 TTTTG-AAAAGTTAATG
1 TTTTGTAAAAGTTAATG
84432 TT
1 TT
84434 ACACATCGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (17 bp):
TTTTGTAAAAGTTAATG
Found at i:88452 original size:4 final size:4
Alignment explanation
Indices: 88445--88474 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
88435 TACATATATA
88445 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
88475 CAGACCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:93703 original size:16 final size:16
Alignment explanation
Indices: 93682--93722 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
93672 GTCAATAGAG
93682 AAGTGTTAAGTGTTAA
1 AAGTGTTAAGTGTTAA
93698 AAGTGTTAAGTGTTAA
1 AAGTGTTAAGTGTTAA
*
93714 AAGTTTTAA
1 AAGTGTTAA
93723 AGGGGATAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (16 bp):
AAGTGTTAAGTGTTAA
Found at i:93756 original size:15 final size:15
Alignment explanation
Indices: 93736--93767 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
93726 GGATAAGTGT
93736 TATAGTAAGGGGGAG
1 TATAGTAAGGGGGAG
93751 TATAGTAAGGGGGAG
1 TATAGTAAGGGGGAG
93766 TA
1 TA
93768 ATTTGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.44, T:0.22
Consensus pattern (15 bp):
TATAGTAAGGGGGAG
Found at i:94215 original size:45 final size:46
Alignment explanation
Indices: 94166--94253 Score: 151
Period size: 45 Copynumber: 1.9 Consensus size: 46
94156 GAACATCGAA
* *
94166 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTTAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTTAG
94211 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACT
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACT
94254 CAGGCTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 21 0.52
46 19 0.47
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTTAG
Found at i:94312 original size:19 final size:19
Alignment explanation
Indices: 94285--94355 Score: 133
Period size: 19 Copynumber: 3.7 Consensus size: 19
94275 ATGCATTTTA
*
94285 TGCATCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
94304 TGCACCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
94323 TGCACCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
94342 TGCACCGATGCACT
1 TGCACCGATGCACT
94356 GAGAGTCCAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (19 bp):
TGCACCGATGCACTCTTAG
Found at i:97178 original size:33 final size:33
Alignment explanation
Indices: 97139--97211 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
97129 TCTTTCACAT
*
97139 TTTTATTATTTGGGTGCTATGATATATATTACA
1 TTTTATTATTTGGGTGCTATAATATATATTACA
97172 TTTTATTATTTGGGTGCTATAATATATATTACA
1 TTTTATTATTTGGGTGCTATAATATATATTACA
*
97205 ATTTATT
1 TTTTATT
97212 GTTTTGAGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.53
Consensus pattern (33 bp):
TTTTATTATTTGGGTGCTATAATATATATTACA
Found at i:105148 original size:20 final size:20
Alignment explanation
Indices: 105123--105178 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
105113 GATTTATTAT
105123 TATGGATTTCAAGTTTATTG
1 TATGGATTTCAAGTTTATTG
*
105143 TATGGATTTCAAGTTTGTTG
1 TATGGATTTCAAGTTTATTG
105163 TATGGATTTCAAGTTT
1 TATGGATTTCAAGTTT
105179 TTTTGGATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.23, C:0.05, G:0.21, T:0.50
Consensus pattern (20 bp):
TATGGATTTCAAGTTTATTG
Done.