Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01016089.1 Corchorus capsularis cultivar CVL-1 contig16110, 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: 91044
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Found at i:850 original size:38 final size:38
Alignment explanation
Indices: 799--912 Score: 192
Period size: 38 Copynumber: 3.0 Consensus size: 38
789 ATATCGGGTA
** *
799 GTGCAAATTTGATTGATGGCTCCGGAAGAGCTAGTATT
1 GTGCAAATTTGATTGAAAGCTCCAGAAGAGCTAGTATT
837 GTGCAAATTTGATTGAAAGCTCCAGAAGAGCTAGTATT
1 GTGCAAATTTGATTGAAAGCTCCAGAAGAGCTAGTATT
*
875 GTGCAAATTTGATTGAAAGATCCAGAAGAGCTAGTATT
1 GTGCAAATTTGATTGAAAGCTCCAGAAGAGCTAGTATT
913 AAGGCTCTGG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 72 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (38 bp):
GTGCAAATTTGATTGAAAGCTCCAGAAGAGCTAGTATT
Found at i:1909 original size:30 final size:33
Alignment explanation
Indices: 1875--1955 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
1865 AAAGGATCAA
*
1875 ATGGCCGGTTGTGCCCGGAT-G-GCC-CATGCG
1 ATGGCCGGTTGTGGCCGGATGGTGCCTCATGCG
*
1905 ATGGCCGGTTGTGGCCGGTTGGTGCCTCATGCG
1 ATGGCCGGTTGTGGCCGGATGGTGCCTCATGCG
*
1938 TTGGCCGGTTGTGGCCGG
1 ATGGCCGGTTGTGGCCGG
1956 TTACTCCATG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 18 0.40
31 1 0.02
32 3 0.07
33 23 0.51
ACGTcount: A:0.06, C:0.26, G:0.43, T:0.25
Consensus pattern (33 bp):
ATGGCCGGTTGTGGCCGGATGGTGCCTCATGCG
Found at i:1943 original size:33 final size:30
Alignment explanation
Indices: 1875--1976 Score: 116
Period size: 30 Copynumber: 3.3 Consensus size: 30
1865 AAAGGATCAA
* *
1875 ATGGCCGGTTGTGCCCGGATGGCCCATGCG
1 ATGGCCGGTTGTGGCCGGTTGGCCCATGCG
1905 ATGGCCGGTTGTGGCCGGTTGGTGCCTCATGCG
1 ATGGCCGGTTGTGGCCGGTT-G-GCC-CATGCG
* *
1938 TTGGCCGGTTGTGGCCGGTT-ACTCCATGCG
1 ATGGCCGGTTGTGGCCGGTTGGC-CCATGCG
*
1968 ATGTCCGGT
1 ATGGCCGGT
1977 CAAGTGGTCG
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
30 32 0.52
31 2 0.03
32 3 0.05
33 25 0.40
ACGTcount: A:0.08, C:0.26, G:0.39, T:0.26
Consensus pattern (30 bp):
ATGGCCGGTTGTGGCCGGTTGGCCCATGCG
Found at i:8250 original size:30 final size:33
Alignment explanation
Indices: 8214--8286 Score: 98
Period size: 30 Copynumber: 2.3 Consensus size: 33
8204 AAAGGATCAA
8214 ATGGCCGGTTGTGCCCGGAT-G-GCC-CATGCG
1 ATGGCCGGTTGTGCCCGGATGGTGCCTCATGCG
* *
8244 ATGGCCGGTTGTGGCCGGTTGGTGCCTCATGCG
1 ATGGCCGGTTGTGCCCGGATGGTGCCTCATGCG
*
8277 TTGGCCGGTT
1 ATGGCCGGTT
8287 ACTCCATGCG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.49
31 1 0.03
32 3 0.08
33 15 0.41
ACGTcount: A:0.07, C:0.26, G:0.41, T:0.26
Consensus pattern (33 bp):
ATGGCCGGTTGTGCCCGGATGGTGCCTCATGCG
Found at i:8729 original size:83 final size:82
Alignment explanation
Indices: 8573--8730 Score: 282
Period size: 83 Copynumber: 1.9 Consensus size: 82
8563 GGTAAGATTG
8573 AAACATATGCTTTTGTAAACAGAAGTTTATTGATTGCATTATGTTTATTGTTTGGCATGACCGTT
1 AAACATATGCTTTTGTAAACAGAAGTTTATTGATTGCATTATGTTTATTGTTTGGCATGACCGTT
*
8638 TAGGCCATCCTGATAAT
66 TAGACCATCCTGATAAT
8655 AAACATATGCTTTTGTAAACCAGAAGTTTATTGATTGCATTATGTTTATTGTTTGGCATGACCGG
1 AAACATATGCTTTTGTAAA-CAGAAGTTTATTGATTGCATTATGTTTATTGTTTGGCATGACC-G
8720 TTT-GACCATCC
64 TTTAGACCATCC
8731 CGGTTCAATT
Statistics
Matches: 73, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
82 19 0.26
83 50 0.68
84 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (82 bp):
AAACATATGCTTTTGTAAACAGAAGTTTATTGATTGCATTATGTTTATTGTTTGGCATGACCGTT
TAGACCATCCTGATAAT
Found at i:12401 original size:28 final size:28
Alignment explanation
Indices: 12369--12434 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
12359 ATAGGAGGCT
*
12369 CTTCATGGCATCTTGGTCATAATATGAA
1 CTTCATGGCATCTTGGTCATAACATGAA
*
12397 CTTCATGGCATCTTGGTCATACCATGAA
1 CTTCATGGCATCTTGGTCATAACATGAA
12425 CTTCATGGCA
1 CTTCATGGCA
12435 CGGTTAGACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (28 bp):
CTTCATGGCATCTTGGTCATAACATGAA
Found at i:14458 original size:32 final size:32
Alignment explanation
Indices: 14407--14477 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
14397 CGGACTTGAG
* *
14407 TCAGG-TCGGCTTGAATTTGGGTCAGGTTACT
1 TCAGGTTCGGCTTGAATTTGGGTCAGATTAAT
* *
14438 TCGGGTTCGGGTTGAATTTGGGTCAGATTAAT
1 TCAGGTTCGGCTTGAATTTGGGTCAGATTAAT
14470 TCAGGTTC
1 TCAGGTTC
14478 AGATTGTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 4 0.12
32 30 0.88
ACGTcount: A:0.17, C:0.14, G:0.32, T:0.37
Consensus pattern (32 bp):
TCAGGTTCGGCTTGAATTTGGGTCAGATTAAT
Found at i:20521 original size:30 final size:30
Alignment explanation
Indices: 20468--20581 Score: 149
Period size: 30 Copynumber: 3.6 Consensus size: 30
20458 GCCGCACAAC
20468 ACCGGCCACATGACCGGCCATCGCATGGGGCA
1 ACCGGCCACA--ACCGGCCATCGCATGGGGCA
*
20500 ACCGGCCACAACCGACCATCGCATGGGGCATCA
1 ACCGGCCACAACCGGCCATCGCATGGGG---CA
20533 ACCGGCCACAACCGGCCATCGCATGGGGCA
1 ACCGGCCACAACCGGCCATCGCATGGGGCA
*
20563 TCC-GCGCACAACCGGCCAT
1 ACCGGC-CACAACCGGCCAT
20582 TCGATCCTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
29 2 0.03
30 34 0.45
32 10 0.13
33 29 0.39
ACGTcount: A:0.24, C:0.40, G:0.27, T:0.09
Consensus pattern (30 bp):
ACCGGCCACAACCGGCCATCGCATGGGGCA
Found at i:20540 original size:33 final size:33
Alignment explanation
Indices: 20468--20564 Score: 146
Period size: 33 Copynumber: 3.0 Consensus size: 33
20458 GCCGCACAAC
20468 ACCGGCCACATGACCGGCCATCGCATGGGG---CA
1 ACCGGCCACA--ACCGGCCATCGCATGGGGCATCA
*
20500 ACCGGCCACAACCGACCATCGCATGGGGCATCA
1 ACCGGCCACAACCGGCCATCGCATGGGGCATCA
20533 ACCGGCCACAACCGGCCATCGCATGGGGCATC
1 ACCGGCCACAACCGGCCATCGCATGGGGCATC
20565 CGCGCACAAC
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
30 17 0.28
32 10 0.17
33 33 0.55
ACGTcount: A:0.24, C:0.39, G:0.28, T:0.09
Consensus pattern (33 bp):
ACCGGCCACAACCGGCCATCGCATGGGGCATCA
Found at i:26724 original size:19 final size:18
Alignment explanation
Indices: 26691--26727 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
26681 TTGAAATAAT
26691 TCTTCAATGATCTTCAAG
1 TCTTCAATGATCTTCAAG
*
26709 TCTTCAAATTATCTTCAAG
1 TCTTC-AATGATCTTCAAG
26728 AAATCTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (18 bp):
TCTTCAATGATCTTCAAG
Found at i:27052 original size:15 final size:13
Alignment explanation
Indices: 27031--27064 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
27021 TTGTCTGCTA
27031 AAGAGAGAG-GTG
1 AAGAGAGAGAGTG
27043 AGAGAGAGAGAGTG
1 A-AGAGAGAGAGTG
27057 AAGAGAGA
1 AAGAGAGA
27065 ATCTAAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 15 0.75
14 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.47, T:0.06
Consensus pattern (13 bp):
AAGAGAGAGAGTG
Found at i:33747 original size:94 final size:92
Alignment explanation
Indices: 33586--33755 Score: 220
Period size: 94 Copynumber: 1.8 Consensus size: 92
33576 GAAGCTTTTA
* * * *
33586 TCTCTCAAAGTCGGCGATCCCCGACTCACTCTCTCTCTCAGATCTCTCGGTGTTCGCCTCCTACA
1 TCTCTCAAAGTCGGCGATCCCCGACTCACTCTCACTCTAAGATCTCACGGTGTCCGCCTCCTACA
33651 AGGTCCACACCAACAACTCAACTACTC
66 AGGTCCACACCAACAACTCAACTACTC
* *
33678 TCTCTCATTAGTCGGCGATCCCCGGGA-TCACTCTCAACTC-AAGATCTCACGGTGTCCGCCTTC
1 TCTCTCA-AAGTCGGCGATCCCC--GACTCACTCTC-ACTCTAAGATCTCACGGTGTCCGCCTCC
33741 -AGCAAGGTCCACACC
62 TA-CAAGGTCCACACC
33756 TCTCATTCTC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
92 7 0.10
93 15 0.22
94 40 0.60
95 5 0.07
ACGTcount: A:0.21, C:0.39, G:0.16, T:0.24
Consensus pattern (92 bp):
TCTCTCAAAGTCGGCGATCCCCGACTCACTCTCACTCTAAGATCTCACGGTGTCCGCCTCCTACA
AGGTCCACACCAACAACTCAACTACTC
Found at i:37871 original size:34 final size:33
Alignment explanation
Indices: 37824--37889 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
37814 TAAGTCAGGC
37824 AAGTGGGAGTCATCATCCAAAGTGGCGCCTCCA
1 AAGTGGGAGTCATCATCCAAAGTGGCGCCTCCA
*
37857 AAGTGGAGGGTCATCATCCAAAGTGGCGCCTCC
1 AAGTGG-GAGTCATCATCCAAAGTGGCGCCTCC
37890 CTCCTCTCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 6 0.19
34 25 0.81
ACGTcount: A:0.26, C:0.27, G:0.29, T:0.18
Consensus pattern (33 bp):
AAGTGGGAGTCATCATCCAAAGTGGCGCCTCCA
Found at i:41046 original size:5 final size:5
Alignment explanation
Indices: 41032--41060 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
41022 AAAAAATATC
41032 AAAA- AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
41061 TCTTCCAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:42630 original size:33 final size:34
Alignment explanation
Indices: 42565--42651 Score: 108
Period size: 33 Copynumber: 2.6 Consensus size: 34
42555 TTTGTTTGCA
* * **
42565 ATGACACTAAATCTGTTTT-GAGTGTTGTTTGTG
1 ATGAAACTAAATCTGTTTTGGAGTGCTAATTGTG
42598 ATGAAACTAAATCTGTTTTGGA-TGCTAATTGTG
1 ATGAAACTAAATCTGTTTTGGAGTGCTAATTGTG
42631 ATGAAA-TCAAATCTGTTTTGG
1 ATGAAACT-AAATCTGTTTTGG
42652 TTGATCATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
32 1 0.02
33 45 0.94
34 2 0.04
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (34 bp):
ATGAAACTAAATCTGTTTTGGAGTGCTAATTGTG
Found at i:42681 original size:33 final size:33
Alignment explanation
Indices: 42644--42722 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
42634 AAATCAAATC
42644 TGTTTTGGTTGATCATAACATTCCAAATAATTA
1 TGTTTTGGTTGATCATAACATTCCAAATAATTA
* * *
42677 TGTTTTGGTTGATCATAATATTGCAAATAATTC
1 TGTTTTGGTTGATCATAACATTCCAAATAATTA
*
42710 TATTTTGGTTGAT
1 TGTTTTGGTTGAT
42723 AGCATTGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (33 bp):
TGTTTTGGTTGATCATAACATTCCAAATAATTA
Found at i:49045 original size:33 final size:31
Alignment explanation
Indices: 48984--49077 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 31
48974 GTCCAGATGT
* * **
48984 CCCAATCGATGGCCGGTTGTGGTTGGTTGGTGC
1 CCCAAGCGATGGCCGGCTGTGGCCGGTT--TGC
*
49017 GCCAAGCGATGGCCGGCTGTGGCCGG-TTGC
1 CCCAAGCGATGGCCGGCTGTGGCCGGTTTGC
*
49047 CCCATGCGATGGCCGGTCATGTGGCCGGTTT
1 CCCAAGCGATGGCCGG-C-TGTGGCCGGTTT
49078 TGCGCGGCTT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
30 17 0.33
31 1 0.02
32 10 0.20
33 23 0.45
ACGTcount: A:0.10, C:0.27, G:0.39, T:0.24
Consensus pattern (31 bp):
CCCAAGCGATGGCCGGCTGTGGCCGGTTTGC
Found at i:55601 original size:12 final size:12
Alignment explanation
Indices: 55586--55629 Score: 79
Period size: 12 Copynumber: 3.7 Consensus size: 12
55576 TCGCATGCGA
55586 TGGCCGGTCATG
1 TGGCCGGTCATG
*
55598 TGGCTGGTCATG
1 TGGCCGGTCATG
55610 TGGCCGGTCATG
1 TGGCCGGTCATG
55622 TGGCCGGT
1 TGGCCGGT
55630 GTTGCGCGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.07, C:0.23, G:0.43, T:0.27
Consensus pattern (12 bp):
TGGCCGGTCATG
Found at i:78982 original size:18 final size:18
Alignment explanation
Indices: 78959--78993 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
78949 CTAAATTAGA
78959 AAACAATTATATAAATCT
1 AAACAATTATATAAATCT
78977 AAACAATTATATAAATC
1 AAACAATTATATAAATC
78994 ACAAGTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
AAACAATTATATAAATCT
Found at i:80151 original size:32 final size:33
Alignment explanation
Indices: 80079--80154 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
80069 TGTCCTTGTG
*
80079 GCGTGGCAGGTGATGGCCAGGCAACTCCAAGTC
1 GCGTGGCCGGTGATGGCCAGGCAACTCCAAGTC
* * *
80112 GCGTGGCCGGTGATGGTCGGGCATCTCCAA-TC
1 GCGTGGCCGGTGATGGCCAGGCAACTCCAAGTC
80144 GCGTGGCCGGT
1 GCGTGGCCGGT
80155 CACAAGTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 13 0.33
33 26 0.67
ACGTcount: A:0.14, C:0.28, G:0.39, T:0.18
Consensus pattern (33 bp):
GCGTGGCCGGTGATGGCCAGGCAACTCCAAGTC
Found at i:81977 original size:30 final size:29
Alignment explanation
Indices: 81941--82046 Score: 88
Period size: 33 Copynumber: 3.3 Consensus size: 29
81931 TTCTCGTCAC
81941 CCAAAACAGATTTATTTTGAATGCTATCAA
1 CCAAAACAGA-TTATTTTGAATGCTATCAA
81971 CCAAAACAGGATTA-TTTGCAATGCTATGATCAA
1 CCAAAACA-GATTATTTTG-AATGC--T-ATCAA
* * *
82004 CCAAAATAACATTATTTTTAATGCTATGTTCAA
1 CCAAAA-CAGATTATTTTGAATGCTA---TCAA
82037 CCAAAACAGA
1 CCAAAACAGA
82047 ATTGTTTTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
29 4 0.07
30 17 0.28
31 3 0.05
32 3 0.05
33 30 0.49
34 4 0.07
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (29 bp):
CCAAAACAGATTATTTTGAATGCTATCAA
Found at i:82008 original size:33 final size:33
Alignment explanation
Indices: 81966--82045 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
81956 TTTGAATGCT
*
81966 ATCAACCAAAACAGGATTATTTGCAATGCTATG
1 ATCAACCAAAACAGCATTATTTGCAATGCTATG
* * **
81999 ATCAACCAAAATAACATTATTTTTAATGCTATG
1 ATCAACCAAAACAGCATTATTTGCAATGCTATG
*
82032 TTCAACCAAAACAG
1 ATCAACCAAAACAG
82046 AATTGTTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (33 bp):
ATCAACCAAAACAGCATTATTTGCAATGCTATG
Found at i:84208 original size:33 final size:33
Alignment explanation
Indices: 84132--84223 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
84122 TAGATAAAGG
*
84132 GTCATGTGGCCGGTTGTGGCCGGGCATGGCCGA
1 GTCACGTGGCCGGTTGTGGCCGGGCATGGCCGA
** * **
84165 GTCATTTGGCCGGTTGTGGCCGGGCATGTCCTT
1 GTCACGTGGCCGGTTGTGGCCGGGCATGGCCGA
*
84198 GTCGCGTGGCCGG-TGATGGCCGGGCA
1 GTCACGTGGCCGGTTG-TGGCCGGGCA
84224 ACTCCAAGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
32 2 0.04
33 49 0.96
ACGTcount: A:0.08, C:0.25, G:0.43, T:0.24
Consensus pattern (33 bp):
GTCACGTGGCCGGTTGTGGCCGGGCATGGCCGA
Found at i:84238 original size:33 final size:33
Alignment explanation
Indices: 84171--84275 Score: 113
Period size: 33 Copynumber: 3.2 Consensus size: 33
84161 CCGAGTCATT
** **
84171 TGGCCGGTTG-TGGCCGGGCATGTCCTTGTCGCG
1 TGGCCGG-TGATGGCCGGGCAACTCCAAGTCGCG
*
84204 TGGCCGGTGATGGCCGGGCAACTCCAAGTTGCG
1 TGGCCGGTGATGGCCGGGCAACTCCAAGTCGCG
* * * *
84237 TGGCCGGTGATGGTCGGTCATCTTCAAGTCGCG
1 TGGCCGGTGATGGCCGGGCAACTCCAAGTCGCG
84270 TGGCCG
1 TGGCCG
84276 ATCACAAGTG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
32 2 0.03
33 59 0.97
ACGTcount: A:0.10, C:0.27, G:0.40, T:0.24
Consensus pattern (33 bp):
TGGCCGGTGATGGCCGGGCAACTCCAAGTCGCG
Found at i:87468 original size:2 final size:2
Alignment explanation
Indices: 87463--87493 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
87453 CACACAAATC
*
87463 AT AT AT AA 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 AT A
87494 CAAACCAAAT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Done.