Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01013996.1 Corchorus olitorius cultivar O-4 contig14029, 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: 7693
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Found at i:979 original size:36 final size:36
Alignment explanation
Indices: 812--1501 Score: 715
Period size: 35 Copynumber: 19.4 Consensus size: 36
802 ATTTCAGATG
* * *
812 CTTCAGTTCATTTCAGTTGACCCAGGGCGGT-CTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
* * * * *
847 ATTCAGTTTATTTCAGCTAACCCAGGGCGGT-CTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
* *** *
882 CTTCAATTCGCTTCAGTTGATTCAGGGCGATCC-TT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
* * * * * * * * **
917 ATTAAATTCATTTCAATTGACCCAGGGTGGTCCCAT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
953 -TTCAGTTTATTTCAGTTTGATCCAGGGCGATCCTTT
1 CTTCAGTTTATTTCAG-TTGATCCAGGGCGATCCTTT
*
989 CTTCAGTTTATATT-AATTGATCCAGGGCGATCCTTT
1 CTTCAGTTTAT-TTCAGTTGATCCAGGGCGATCCTTT
* *
1025 CTTCAGTTTATTTCAGTTGACCCAGGGCGGT-CTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
* *
1060 CTTCAGTTTATTTCAATTGATCTAGGGCGATCCTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
* *
1096 CTTCAGTTTATTTCAGTTGACCCAGGGCGGT-CTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
* *
1131 CTTCAGTTTATTTCAGTTAATCCAAGGCGATCC-TT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
* * * * * * * **
1166 ATTAAATTCATTTCAATTGA-CCTAGGGTGGTCCCAT
1 CTTCAGTTTATTTCAGTTGATCC-AGGGCGATCCTTT
*
1202 -TTCAGTTTATTTTAGTTTGATCCAGGGCGATCCTTT
1 CTTCAGTTTATTTCAG-TTGATCCAGGGCGATCCTTT
*
1238 CTTCAGTTTATATT-AATTGATCCAGGGCGATCCTTT
1 CTTCAGTTTAT-TTCAGTTGATCCAGGGCGATCCTTT
* * *
1274 CTTTAGTTTATTTCAGTTGACCCAGGGCGGT-CTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
* *
1309 CTTCAGTTTATTTCAGTTGACCCAGGGCGGT-CTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
*
1344 CTTCAGTTTATTTCAATTGATCCAGGGCGATCCTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
* * * *
1380 CTTCAGTTTATTTTAGTTGACCCAAGGCGGT-CTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
* * *
1415 CTTCAGTATATTTCAGTTGATCCACGGCGATCTTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
* *
1451 CTTCAGTTTATTTCAATTGATCCAGGGCGATCTTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
1487 CTTCAGTTTATTTCA
1 CTTCAGTTTATTTCA
1502 AGGCGATCTG
Statistics
Matches: 547, Mismatches: 91, Indels: 33
0.82 0.14 0.05
Matches are distributed among these distances:
34 2 0.00
35 284 0.52
36 233 0.43
37 24 0.04
38 4 0.01
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (36 bp):
CTTCAGTTTATTTCAGTTGATCCAGGGCGATCCTTT
Found at i:1078 original size:71 final size:71
Alignment explanation
Indices: 812--1502 Score: 748
Period size: 71 Copynumber: 9.7 Consensus size: 71
802 ATTTCAGATG
* * ** * * *
812 CTTCAGTTCATTTCAGTTGACCCAGGGCGGTCTTTATTCAGTTTATTTCAGCTAACCCAGGGCGG
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAATTGATCCAGGGCGA
877 T-CTTT
66 TCCTTT
* *** ** * * * * * * * * *
882 CTTCAATTCGCTTCAGTTGATTCAGGGCGATCCTTATTAAATTCATTTCAATTGACCCAGGGTGG
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAATTGATCCAGGGCGA
**
947 TCCCAT
66 TCCTTT
* *
953 -TTCAGTTTATTTCAGTTTGATCCAGGGCGATCCTTTCTTCAGTTTATATT-AATTGATCCAGGG
1 CTTCAGTTTATTTCAG-TTGACCCAGGGCGGT-CTTTCTTCAGTTTAT-TTCAATTGATCCAGGG
1016 CGATCCTTT
63 CGATCCTTT
*
1025 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAATTGATCTAGGGCGA
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAATTGATCCAGGGCGA
1090 TCCTTT
66 TCCTTT
* * *
1096 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAGTTAATCCAAGGCGA
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAATTGATCCAGGGCGA
1161 TCC-TT
66 TCCTTT
* * * * * * * ** * *
1166 ATTAAATTCATTTCAATTGACCTAGGGTGGTCCCAT-TTCAGTTTATTTTAGTTTGATCCAGGGC
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGT-CTTTCTTCAGTTTATTTCA-ATTGATCCAGGGC
1230 GATCCTTT
64 GATCCTTT
* * * * * *
1238 CTTCAGTTTATATT-AATTGATCCAGGGCGATCCTTTCTTTAGTTTATTTCAGTTGACCCAGGGC
1 CTTCAGTTTAT-TTCAGTTGACCCAGGGCGGT-CTTTCTTCAGTTTATTTCAATTGATCCAGGGC
*
1302 GGT-CTTT
64 GATCCTTT
1309 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAATTGATCCAGGGCGA
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAATTGATCCAGGGCGA
1374 TCCTTT
66 TCCTTT
* * * * *
1380 CTTCAGTTTATTTTAGTTGACCCAAGGCGGTCTTTCTTCAGTATATTTCAGTTGATCCACGGCGA
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAATTGATCCAGGGCGA
*
1445 TCTTTT
66 TCCTTT
* * *
1451 CTTCAGTTTATTTCAATTGATCCAGGGCGATCTTTTCTTCAGTTTATTTCAA
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTC-TTTCTTCAGTTTATTTCAA
1503 GGCGATCTGT
Statistics
Matches: 521, Mismatches: 86, Indels: 26
0.82 0.14 0.04
Matches are distributed among these distances:
70 137 0.26
71 258 0.50
72 95 0.18
73 31 0.06
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (71 bp):
CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAATTGATCCAGGGCGA
TCCTTT
Found at i:1286 original size:249 final size:248
Alignment explanation
Indices: 812--1497 Score: 980
Period size: 249 Copynumber: 2.8 Consensus size: 248
802 ATTTCAGATG
* * * *
812 CTTCAGTTCATTTCAGTTGACCCAGGGCGGTCTTTATTCAGTTTATTTCAGCTAACCCAGGGCGG
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAGTTGACCCAGGGCGG
* *** * *
877 TCTTTCTTCAATTCGCTTCAGTTGATTCAGGGCGATCCTTATTAAATTCATTTCAATTGACCCAG
66 TCTTTCTTCAGTTTATTTCAGTTGATCCAAGGCGATCCTTATTAAATTCATTTCAATTGACCCAG
942 GGTGGTCCCATTTCAGTTTATTTCAGTTTGATCCAGGGCGATCCTTTCTTCAGTTTATATTAATT
131 GGTGGTCCCATTTCAGTTTATTTCAGTTTGATCCAGGGCGATCCTTTCTTCAGTTTATATTAATT
1007 GATCCAGGGCGATCCTTTCTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
196 GATCCAGGGCGATCCTTTCTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
* * * *
1060 CTTCAGTTTATTTCAATTGATCTAGGGCGATCCTTTCTTCAGTTTATTTCAGTTGACCCAGGGCG
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGT-CTTTCTTCAGTTTATTTCAGTTGACCCAGGGCG
* *
1125 GTCTTTCTTCAGTTTATTTCAGTTAATCCAAGGCGATCCTTATTAAATTCATTTCAATTGACCTA
65 GTCTTTCTTCAGTTTATTTCAGTTGATCCAAGGCGATCCTTATTAAATTCATTTCAATTGACCCA
*
1190 GGGTGGTCCCATTTCAGTTTATTTTAGTTTGATCCAGGGCGATCCTTTCTTCAGTTTATATTAAT
130 GGGTGGTCCCATTTCAGTTTATTTCAGTTTGATCCAGGGCGATCCTTTCTTCAGTTTATATTAAT
*
1255 TGATCCAGGGCGATCCTTTCTTTAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
195 TGATCCAGGGCGATCCTTTCTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
* * *
1309 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAATTGATCCAGGGCGA
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAGTTGACCCAGGGCGG
* * * * * * * * *
1374 TCCTTTCTTCAGTTTATTTTAGTTGACCCAAGGCGGTCTTTCTTCAGTAT-ATTTCAGTTGATCC
66 T-CTTTCTTCAGTTTATTTCAGTTGATCCAAGGCGATCCTTATTAAAT-TCATTTCAATTGACCC
* * * *** * *
1438 ACGGCGATCTTTTCTTCAGTTTATTTCA-ATTGATCCAGGGCGATCTTTTCTTCAGTTTAT
129 AGGGTGGTCCCAT-TTCAGTTTATTTCAGTTTGATCCAGGGCGATCCTTTCTTCAGTTTAT
1498 TTCAAGGCGA
Statistics
Matches: 389, Mismatches: 45, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
248 58 0.15
249 317 0.81
250 14 0.04
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (248 bp):
CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAGTTGACCCAGGGCGG
TCTTTCTTCAGTTTATTTCAGTTGATCCAAGGCGATCCTTATTAAATTCATTTCAATTGACCCAG
GGTGGTCCCATTTCAGTTTATTTCAGTTTGATCCAGGGCGATCCTTTCTTCAGTTTATATTAATT
GATCCAGGGCGATCCTTTCTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
Found at i:1864 original size:30 final size:30
Alignment explanation
Indices: 1830--2576 Score: 955
Period size: 30 Copynumber: 24.8 Consensus size: 30
1820 TGCTTTATCA
* *
1830 GCTTTATTTTAATCTTGTTTGAGGATCCTT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
** *
1860 GCTTTATTCGAATCTTGTTTGAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
* * *
1890 GCGTCATTTAAATCCTGTTTGAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
* *
1920 GCTTCATTTTAATCATGTTTGAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
*
1950 GCTTCATTTTAATCCTGTTTGAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
** *
1980 GCTCCATTTTAATCCTATTTGAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
2010 GCTTTATTTTAATCCTGTTTGAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
* *
2040 GCTTTATGTTTAATCCTGGTTGAGGATCATA
1 GCTTTAT-TTTAATCCTGTTTGAGGATCATT
* *
2071 GCTTCATTTTAATCCTGTTTGAGGATCCTT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
*
2101 GCTTTATTCTAATCCTGTTTGAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
* * *
2131 GCGTCATTTAAATCCTGTTTGAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
* * * * *
2161 ACTTCATTTAAATCCTGGTTGAGGATCATA
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
* *
2191 GCTTTATTCTAATCCTGTTTAAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
* * *
2221 GCGTCATTTTAATCATGTTTGAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
*
2251 GCTTCATTTTAATCCTGTTTGAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
2281 GCTTTATTTTAATCCTGTTTGAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
* *
2311 GCTTTATGTTTAATCCTGGTTGAGGATCATA
1 GCTTTAT-TTTAATCCTGTTTGAGGATCATT
* *
2342 GCTTTATTTTAATCCTGGTTGAGGATCATA
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
*
2372 GCTTCATTTTAATCCTAGTTT-AGGATCATT
1 GCTTTATTTTAATCCT-GTTTGAGGATCATT
*
2402 GCTTTATTTTAATCCTAG-TTAAGGATCATT
1 GCTTTATTTTAATCCT-GTTTGAGGATCATT
* * *
2432 GCTTTGTTTTAATCCTGGTTAAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
* *
2462 GCTTCATTTTAATCCTGGTTGAGGATCATT
1 GCTTTATTTTAATCCTGTTTGAGGATCATT
2492 GCTTTATTTTAATCCTAG-TTGAGGATCATT
1 GCTTTATTTTAATCCT-GTTTGAGGATCATT
* *
2522 GCATTATTTTAATCCTAGTTT-AAGATCATT
1 GCTTTATTTTAATCCT-GTTTGAGGATCATT
** *
2552 GCCATATTTCAATCCTGGTTT-AGGA
1 GCTTTATTTTAATCCT-GTTTGAGGA
2577 CTATTTGTTT
Statistics
Matches: 643, Mismatches: 67, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
29 3 0.00
30 579 0.90
31 61 0.09
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.45
Consensus pattern (30 bp):
GCTTTATTTTAATCCTGTTTGAGGATCATT
Found at i:2262 original size:241 final size:239
Alignment explanation
Indices: 1829--2537 Score: 1053
Period size: 241 Copynumber: 2.9 Consensus size: 239
1819 TTGCTTTATC
* * *
1829 AGCTTTATTTTAATCTTGTTTGAGGATCCTTGCTTTATTCGAATCTTGTTTGAGGATCATTGCGT
1 AGCTTTATTTTAATCCTGTTTGAGGATCCTTGCTTTATTCTAATCCTGTTTGAGGATCATTGCGT
* * *
1894 CATTTAAATCCTGTTTGAGGATCATTGCTTCATTTTAATCATGTTTGAGGATCATTGCTTCATTT
66 CATTTAAATCCTGTTTGAGGATCATTGCTTCATTTTAATCCTGGTTGAGGATCATTGCTTTATTT
* *
1959 TAATCCTGTTTGAGGATCATTGCTCCATTTTAATCCTATTTGAGGATCATTGCTTTATTTTAATC
131 TAATCCTGTTTAAGGATCATTGCT-CATTTTAATCCTGTTTGAGGATCATTGCTTTATTTTAATC
2024 CTGTTTGAGGATCATTGCTTTATGTTTAATCCTGGTTGAGGATCAT
195 CTGTTTGAGGATCATTGCTTTAT-TTTAATCCTGGTTGAGGATCAT
*
2070 AGCTTCATTTTAATCCTGTTTGAGGATCCTTGCTTTATTCTAATCCTGTTTGAGGATCATTGCGT
1 AGCTTTATTTTAATCCTGTTTGAGGATCCTTGCTTTATTCTAATCCTGTTTGAGGATCATTGCGT
* * * *
2135 CATTTAAATCCTGTTTGAGGATCATTACTTCATTTAAATCCTGGTTGAGGATCATAGCTTTATTC
66 CATTTAAATCCTGTTTGAGGATCATTGCTTCATTTTAATCCTGGTTGAGGATCATTGCTTTATTT
* *
2200 TAATCCTGTTTAAGGATCATTGCGTCATTTTAATCATGTTTGAGGATCATTGCTTCATTTTAATC
131 TAATCCTGTTTAAGGATCATTGC-TCATTTTAATCCTGTTTGAGGATCATTGCTTTATTTTAATC
*
2265 CTGTTTGAGGATCATTGCTTTATTTTAATCCTGTTTGAGGATCAT
195 CTGTTTGAGGATCATTGCTTTATTTTAATCCTGGTTGAGGATCAT
* * * * * * * *
2310 TGCTTTATGTTTAATCCTGGTTGAGGATCATAGCTTTATTTTAATCCTGGTTGAGGATCATAGCT
1 AGCTTTAT-TTTAATCCTGTTTGAGGATCCTTGCTTTATTCTAATCCTGTTTGAGGATCATTGCG
* * * * *
2375 TCATTTTAATCCTAGTTT-AGGATCATTGCTTTATTTTAATCCTAGTTAAGGATCATTGCTTTGT
65 TCATTTAAATCCT-GTTTGAGGATCATTGCTTCATTTTAATCCTGGTTGAGGATCATTGCTTTAT
* *
2439 TTTAATCCTGGTTAAGGATCATTGCTTCATTTTAATCCTGGTTGAGGATCATTGCTTTATTTTAA
129 TTTAATCCTGTTTAAGGATCATTGC-TCATTTTAATCCTGTTTGAGGATCATTGCTTTATTTTAA
*
2504 TCCTAG-TTGAGGATCATTGCATTATTTTAATCCT
193 TCCT-GTTTGAGGATCATTGCTTTATTTTAATCCT
2538 AGTTTAAGAT
Statistics
Matches: 424, Mismatches: 40, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
240 27 0.06
241 391 0.92
242 6 0.01
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.45
Consensus pattern (239 bp):
AGCTTTATTTTAATCCTGTTTGAGGATCCTTGCTTTATTCTAATCCTGTTTGAGGATCATTGCGT
CATTTAAATCCTGTTTGAGGATCATTGCTTCATTTTAATCCTGGTTGAGGATCATTGCTTTATTT
TAATCCTGTTTAAGGATCATTGCTCATTTTAATCCTGTTTGAGGATCATTGCTTTATTTTAATCC
TGTTTGAGGATCATTGCTTTATTTTAATCCTGGTTGAGGATCAT
Found at i:3022 original size:28 final size:28
Alignment explanation
Indices: 2965--3039 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
2955 GGTCATCTGG
2965 GGGGCATTTTGGTCA-TTTTTACATCCA
1 GGGGCATTTTGGTCATTTTTTACATCCA
**
2992 GGGGCATTTTGGTCATTTTTGTAC-TTTA
1 GGGGCATTTTGGTCATTTTT-TACATCCA
* *
3020 GGGGCACTTTAGTCATTTTT
1 GGGGCATTTTGGTCATTTTT
3040 AAGTCATTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 15 0.36
28 24 0.57
29 3 0.07
ACGTcount: A:0.16, C:0.15, G:0.24, T:0.45
Consensus pattern (28 bp):
GGGGCATTTTGGTCATTTTTTACATCCA
Found at i:3606 original size:12 final size:13
Alignment explanation
Indices: 3573--3607 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
3563 CTTCTCTCAA
3573 TGTCATTTCTTCT
1 TGTCATTTCTTCT
*
3586 TGGCATTTCTTCT
1 TGTCATTTCTTCT
3599 T-TCATTTCT
1 TGTCATTTCT
3608 CACAGCTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.09, C:0.23, G:0.09, T:0.60
Consensus pattern (13 bp):
TGTCATTTCTTCT
Found at i:5007 original size:17 final size:17
Alignment explanation
Indices: 4985--5018 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4975 GTTGAAGCGG
4985 CTTGCCTCGTCGAAATC
1 CTTGCCTCGTCGAAATC
5002 CTTGCCTCGTCGAAATC
1 CTTGCCTCGTCGAAATC
5019 TCAAACGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.35, G:0.18, T:0.29
Consensus pattern (17 bp):
CTTGCCTCGTCGAAATC
Found at i:6503 original size:13 final size:14
Alignment explanation
Indices: 6485--6513 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6475 ATAATTGGAC
6485 TTTGCATACAT-CA
1 TTTGCATACATGCA
6498 TTTGCATACATGCA
1 TTTGCATACATGCA
6512 TT
1 TT
6514 AATTTAGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (14 bp):
TTTGCATACATGCA
Found at i:6564 original size:17 final size:18
Alignment explanation
Indices: 6525--6564 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
6515 ATTTAGAGTT
6525 AGAAAAAGGAAAAAATCC
1 AGAAAAAGGAAAAAATCC
*
6543 A-AAAAATGAAAAAAT-C
1 AGAAAAAGGAAAAAATCC
6559 AGAAAA
1 AGAAAA
6565 TTAAAAGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 17 0.85
18 1 0.05
ACGTcount: A:0.72, C:0.07, G:0.12, T:0.07
Consensus pattern (18 bp):
AGAAAAAGGAAAAAATCC
Done.