Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005921.1 Hibiscus syriacus cultivar Beakdansim tig00013900_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: 70653
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:2034 original size:2 final size:2
Alignment explanation
Indices: 2027--2056 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2017 GGTATTTGAC
2027 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
2057 GAAGAGTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11764 original size:14 final size:16
Alignment explanation
Indices: 11735--11766 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
11725 CGTTTGTGAA
11735 CGTTCGATTATATGTT
1 CGTTCGATTATATGTT
11751 CGTTC-ATT-TATGTT
1 CGTTCGATTATATGTT
11765 CG
1 CG
11767 AACAGATGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (16 bp):
CGTTCGATTATATGTT
Found at i:12042 original size:22 final size:23
Alignment explanation
Indices: 12012--12063 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
12002 GAATAAATTT
* *
12012 GTTTTTTGTGTTTG-TGTTGTTC
1 GTTTATTGTGTTCGTTGTTGTTC
* *
12034 GTTTATTGTGTTCGTTTTTGTTT
1 GTTTATTGTGTTCGTTGTTGTTC
12057 GTTTATT
1 GTTTATT
12064 ATTTAAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.04, C:0.04, G:0.23, T:0.69
Consensus pattern (23 bp):
GTTTATTGTGTTCGTTGTTGTTC
Found at i:15472 original size:19 final size:19
Alignment explanation
Indices: 15448--15484 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15438 TATTATTTAA
*
15448 AAAATATAAATAACGTGTC
1 AAAATATAAAGAACGTGTC
15467 AAAATATAAAGAACGTGT
1 AAAATATAAAGAACGTGT
15485 ATTAACACGA
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:0.54, C:0.08, G:0.14, T:0.24
Consensus pattern (19 bp):
AAAATATAAAGAACGTGTC
Found at i:20443 original size:29 final size:29
Alignment explanation
Indices: 20401--20471 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
20391 GTGTGAGATC
20401 GGGAAATAAAGTTCAACGGGCGTCTGACA
1 GGGAAATAAAGTTCAACGGGCGTCTGACA
*
20430 GGGAAATAAAGTTCAACGGGTGTCTGACA
1 GGGAAATAAAGTTCAACGGGCGTCTGACA
20459 GGGAAATAAAGTT
1 GGGAAATAAAGTT
20472 TGAAAAGGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.20
Consensus pattern (29 bp):
GGGAAATAAAGTTCAACGGGCGTCTGACA
Found at i:25135 original size:17 final size:16
Alignment explanation
Indices: 25114--25144 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25104 CTTCTATTTT
25114 TTTTTTGAATTCAAGC
1 TTTTTTGAATTCAAGC
*
25130 TTTTTTGAGTTCAAG
1 TTTTTTGAATTCAAG
25145 TTTCAATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.10, G:0.16, T:0.52
Consensus pattern (16 bp):
TTTTTTGAATTCAAGC
Found at i:25981 original size:23 final size:24
Alignment explanation
Indices: 25943--25993 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
25933 ATATAATTGA
*
25943 ATTTTTTTATATGACATTGATCGG
1 ATTTTTTTATAAGACATTGATCGG
*
25967 ATTTTTTTA-AAGACATTGGTCGG
1 ATTTTTTTATAAGACATTGATCGG
25990 -TTTT
1 ATTTT
25994 AGTATTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.16
23 12 0.48
24 9 0.36
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.51
Consensus pattern (24 bp):
ATTTTTTTATAAGACATTGATCGG
Found at i:28018 original size:17 final size:16
Alignment explanation
Indices: 27992--28027 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
27982 TTATGATGTG
27992 AAAATATTATTATTGTA
1 AAAATATTATTATT-TA
*
28009 AAAATGTTATTATTTA
1 AAAATATTATTATTTA
28025 AAA
1 AAA
28028 TAATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
AAAATATTATTATTTA
Found at i:30047 original size:21 final size:21
Alignment explanation
Indices: 30023--30069 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
30013 GATTCGCAAC
**
30023 GCGAACTTAGACTATCGTAAT
1 GCGAACTTAGACTATCACAAT
*
30044 GCGAACTTGGACTATCACAAT
1 GCGAACTTAGACTATCACAAT
30065 GCGAA
1 GCGAA
30070 TATGTAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (21 bp):
GCGAACTTAGACTATCACAAT
Found at i:30108 original size:21 final size:21
Alignment explanation
Indices: 30078--30200 Score: 174
Period size: 21 Copynumber: 5.9 Consensus size: 21
30068 AATATGTAAA
*
30078 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
30099 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
* *
30120 TCGCGTTGGGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
* *
30141 TCGCGTTGCGATAGTCAAAGT
1 TCGCATTGCGATAGTCGAAGT
*
30162 TCGCATTACGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
**
30183 TCGTGTTGCGATAGTCGA
1 TCGCATTGCGATAGTCGA
30201 CTATCGTATT
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 91 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:30207 original size:21 final size:21
Alignment explanation
Indices: 30084--30215 Score: 113
Period size: 21 Copynumber: 6.3 Consensus size: 21
30074 TAAATCGCAA
* *
30084 TGCGATAGTCGAAGTTCGCAT
1 TGCGATAGTCGAACTTCGTAT
* **
30105 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAACTTCGTAT
* * **
30126 TGGGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAACTTCGTAT
* * *
30147 TGCGATAGTCAAAGTTCGCAT
1 TGCGATAGTCGAACTTCGTAT
* * *
30168 TACGATAGTCGAAGTTCGTGT
1 TGCGATAGTCGAACTTCGTAT
30189 TGCGATAGTCG-ACTATCGTAT
1 TGCGATAGTCGAACT-TCGTAT
30210 TGCGAT
1 TGCGAT
30216 TTACATATTC
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
20 2 0.02
21 96 0.98
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (21 bp):
TGCGATAGTCGAACTTCGTAT
Found at i:30213 original size:63 final size:63
Alignment explanation
Indices: 30078--30215 Score: 188
Period size: 63 Copynumber: 2.2 Consensus size: 63
30068 AATATGTAAA
* * * * *
30078 TCGCAATGCGATAGTCGAAGTTCGCATTGCGATAGTCGAAGTTCGCGTTGGGATAGTCGAAGT
1 TCGCATTGCGATAGTCAAAGTTCGCATTACGATAGTCGAAGTTCGCGTTGCGATAGTCGAACT
* *
30141 TCGCGTTGCGATAGTCAAAGTTCGCATTACGATAGTCGAAGTTCGTGTTGCGATAGTCG-ACT
1 TCGCATTGCGATAGTCAAAGTTCGCATTACGATAGTCGAAGTTCGCGTTGCGATAGTCGAACT
*
30203 ATCGTATTGCGAT
1 -TCGCATTGCGAT
30216 TTACATATTC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
62 2 0.03
63 63 0.97
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (63 bp):
TCGCATTGCGATAGTCAAAGTTCGCATTACGATAGTCGAAGTTCGCGTTGCGATAGTCGAACT
Found at i:30257 original size:41 final size:41
Alignment explanation
Indices: 30140--30282 Score: 157
Period size: 41 Copynumber: 3.5 Consensus size: 41
30130 ATAGTCGAAG
* * *
30140 TTCGCGTTGCGATAGTCAAAGT-TCGCATTACGATAGT-CGA-A
1 TTCGCGTTGCGATAGTC-GACTATCGCATTACGAT-TTAC-ATA
* * *
30181 GTTCGTGTTGCGATAGTCGACTATCGTATTGCGATTTACATA
1 -TTCGCGTTGCGATAGTCGACTATCGCATTACGATTTACATA
*
30223 TTCGCGTTGTGATAGTCGACTATCGCATTACGATTTACATA
1 TTCGCGTTGCGATAGTCGACTATCGCATTACGATTTACATA
*
30264 TTCGCATTGCGATAGTCGA
1 TTCGCGTTGCGATAGTCGA
30283 AGTTCGCGTT
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
41 58 0.67
42 28 0.33
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTCGACTATCGCATTACGATTTACATA
Found at i:30441 original size:11 final size:11
Alignment explanation
Indices: 30425--30449 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30415 ACCATTACCA
30425 CGACCACGACC
1 CGACCACGACC
30436 CGACCACGACC
1 CGACCACGACC
30447 CGA
1 CGA
30450 GACGAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.52, G:0.20, T:0.00
Consensus pattern (11 bp):
CGACCACGACC
Found at i:30558 original size:2 final size:2
Alignment explanation
Indices: 30553--30578 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30543 TAAATTTGGA
30553 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
30579 GCACAATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:30831 original size:21 final size:21
Alignment explanation
Indices: 30805--30858 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
30795 GTTTCCAGAT
*
30805 TCGCAACGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
30826 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
30847 TCACAATGCGAA
1 TCGCAATGCGAA
30859 TATGTAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:30897 original size:21 final size:21
Alignment explanation
Indices: 30867--31065 Score: 162
Period size: 21 Copynumber: 9.6 Consensus size: 21
30857 AATATGTAAA
*
30867 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
30888 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
* *
30909 TCGCGTTGCGATAGTCAAAGT
1 TCGCATTGCGATAGTCGAAGT
30930 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
** *
30951 TCGTGTTGCGATAGTCG-ACT
1 TCGCATTGCGATAGTCGAAGT
* *
30971 ATCGTATTGCGAT-TTAC-ATA-T
1 -TCGCATTGCGATAGT-CGA-AGT
* *
30992 TCGCGTTGCGATAGTCG-ATT
1 TCGCATTGCGATAGTCGAAGT
* *
31012 ATCGCATTACGAT-TTAC-ATA-T
1 -TCGCATTGCGATAGT-CGA-AGT
*
31033 TAGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
31054 TCGCGTTGCGAT
1 TCGCATTGCGAT
31066 TTATTCCAAA
Statistics
Matches: 143, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
19 1 0.01
20 28 0.20
21 112 0.78
22 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:30920 original size:42 final size:41
Alignment explanation
Indices: 30873--31065 Score: 173
Period size: 41 Copynumber: 4.7 Consensus size: 41
30863 TAAATCGCAA
30873 TGCGATAGTCGAAGTTCGCATTGCGATAGT-CGA-AGTTCGCGT
1 TGCGATAGTCGAAGTTCGCATTGCGAT-GTAC-ATA-TTCGCGT
* *
30915 TGCGATAGTCAAAGTTCGCATTGCGATAGT-CGA-AGTTCGTGT
1 TGCGATAGTCGAAGTTCGCATTGCGAT-GTAC-ATA-TTCGCGT
* * *
30957 TGCGATAGTCG-ACTATCGTATTGCGATTTACATATTCGCGT
1 TGCGATAGTCGAAGT-TCGCATTGCGATGTACATATTCGCGT
* * * * *
30998 TGCGATAGTCG-ATTATCGCATTACGATTTACATATTAGCAT
1 TGCGATAGTCGAAGT-TCGCATTGCGATGTACATATTCGCGT
*
31039 TGCGATAGTCGAAGTTCGCGTTGCGAT
1 TGCGATAGTCGAAGTTCGCATTGCGAT
31066 TTATTCCAAA
Statistics
Matches: 132, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
41 67 0.51
42 65 0.49
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (41 bp):
TGCGATAGTCGAAGTTCGCATTGCGATGTACATATTCGCGT
Found at i:31044 original size:20 final size:20
Alignment explanation
Indices: 30976--31044 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
30966 CGACTATCGT
30976 ATTGCGATTTACATATTCGC
1 ATTGCGATTTACATATTCGC
* *
30996 GTTGCGATAGT-CGAT-TATCGC
1 ATTGCGAT-TTAC-ATAT-TCGC
* *
31017 ATTACGATTTACATATTAGC
1 ATTGCGATTTACATATTCGC
31037 ATTGCGAT
1 ATTGCGAT
31045 AGTCGAAGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 22 0.59
21 15 0.41
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (20 bp):
ATTGCGATTTACATATTCGC
Found at i:31183 original size:6 final size:6
Alignment explanation
Indices: 31172--31242 Score: 114
Period size: 6 Copynumber: 12.5 Consensus size: 6
31162 GACGTGTCGA
31172 ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC-CG ACC-CG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
31216 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
31243 CGAGACGAGA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
5 20 0.31
6 44 0.69
ACGTcount: A:0.30, C:0.54, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:31916 original size:21 final size:21
Alignment explanation
Indices: 31892--31938 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
31882 GATTTACATA
**
31892 TTCGCATTGTGATAGTCCAAG
1 TTCGCATTACGATAGTCCAAG
*
31913 TTCGCATTACGATAGTCGAAG
1 TTCGCATTACGATAGTCCAAG
31934 TTCGC
1 TTCGC
31939 GTTGCGAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (21 bp):
TTCGCATTACGATAGTCCAAG
Found at i:39209 original size:18 final size:18
Alignment explanation
Indices: 39186--39233 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
39176 AAATTGTCCT
*
39186 TATTATATATTTGTATAA
1 TATTATATATTTGTAAAA
*
39204 TATTATA-AATTGTAAAA
1 TATTATATATTTGTAAAA
39221 TATTTATATATTT
1 TA-TTATATATTT
39234 TCTTTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 12 0.48
19 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
TATTATATATTTGTAAAA
Found at i:63892 original size:21 final size:22
Alignment explanation
Indices: 63863--63903 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
63853 TACACAGAAG
*
63863 TCGGATTTTAATTTGATTTGGA
1 TCGGATTTTAATTCGATTTGGA
*
63885 TCGG-TTTTTATTCGATTTG
1 TCGGATTTTAATTCGATTTG
63904 ATTTTTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.17, C:0.07, G:0.22, T:0.54
Consensus pattern (22 bp):
TCGGATTTTAATTCGATTTGGA
Found at i:64126 original size:33 final size:32
Alignment explanation
Indices: 64079--64222 Score: 243
Period size: 33 Copynumber: 4.4 Consensus size: 32
64069 ACAAAGTTTA
*
64079 CGATAATTGAAATACTTAAATACTTCCAAGTT
1 CGATAATTGAAATACTTAAAAACTTCCAAGTT
*
64111 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGAT-AATTGAAATACTTAAAAACTTCCAAGTT
64144 CGATAATTGAAATACTTAAAAACTTCCAAGTT
1 CGATAATTGAAATACTTAAAAACTTCCAAGTT
*
64176 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGAT-AATTGAAATACTTAAAAACTTCCAAGTT
64209 CGATAATTGAAATA
1 CGATAATTGAAATA
64223 AAGTTTACGA
Statistics
Matches: 105, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
32 44 0.42
33 61 0.58
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.31
Consensus pattern (32 bp):
CGATAATTGAAATACTTAAAAACTTCCAAGTT
Found at i:64155 original size:65 final size:65
Alignment explanation
Indices: 64079--64222 Score: 279
Period size: 65 Copynumber: 2.2 Consensus size: 65
64069 ACAAAGTTTA
*
64079 CGATAATTGAAATACTTAAATACTTCCAAGTTCGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAATTGAAATACTTAAAAACTTCCAAGTTCGATAAATTCAAATACTTAAAAACTTCCAAGTT
64144 CGATAATTGAAATACTTAAAAACTTCCAAGTTCGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAATTGAAATACTTAAAAACTTCCAAGTTCGATAAATTCAAATACTTAAAAACTTCCAAGTT
64209 CGATAATTGAAATA
1 CGATAATTGAAATA
64223 AAGTTTACGA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 78 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.31
Consensus pattern (65 bp):
CGATAATTGAAATACTTAAAAACTTCCAAGTTCGATAAATTCAAATACTTAAAAACTTCCAAGTT
Found at i:64234 original size:21 final size:21
Alignment explanation
Indices: 64209--64250 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
64199 CTTCCAAGTT
64209 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAATAAAGTTTA
64230 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAATAAAGTTTA
64251 AAAATAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (21 bp):
CGATAATTGAAATAAAGTTTA
Found at i:66456 original size:23 final size:22
Alignment explanation
Indices: 66411--66455 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
66401 TTAAACCCCG
66411 ACCGATTTTTTTCCGGATAAAA
1 ACCGATTTTTTTCCGGATAAAA
*
66433 ACCGGTTTTTTATCCGG-TAAAA
1 ACCGATTTTTT-TCCGGATAAAA
66455 A
1 A
66456 ATCAGTCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (22 bp):
ACCGATTTTTTTCCGGATAAAA
Done.