Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010055.1 Corchorus capsularis cultivar CVL-1 contig10076, 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: 45208
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:474 original size:14 final size:14
Alignment explanation
Indices: 440--476 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
430 TATATATATA
*
440 TTAAACTTTATTTC
1 TTAACCTTTATTTC
454 TTAACCTTTATTTC
1 TTAACCTTTATTTC
*
468 TTCACCTTT
1 TTAACCTTT
477 GCTTCGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAACCTTTATTTC
Found at i:2485 original size:113 final size:108
Alignment explanation
Indices: 2247--2543 Score: 330
Period size: 113 Copynumber: 2.7 Consensus size: 108
2237 TGTAATGTTA
* * **
2247 GAAAGCTATACATTCGGAGTAATCACTCGATTAGGGCCAGGCGGCACAAACAAAAAGAGAGTCTT
1 GAAAGCTATACATTCGGGGTAATCACTCGATTAGGGCCAGGTGGCACAAACAAAAAGAGA--CAA
* * *
2312 TACCCTT-C-C-AACTTTTTTGGCATAGACAAAGAGTTGAATTAG
64 AACCCTTACTCTAACTTTTTGGGCATAGACAAAGAGTTGAATCAG
* * *
2354 GAAAGCTATATATTCGGGGTAATCACTTGATTAGGGTCAGGTGGCACAAACAAAAAGAGACAAAA
1 GAAAGCTATACATTCGGGGTAATCACTCGATTAGGGCCAGGTGGCACAAACAAAAAGAGACAAAA
*
2419 CCCTTACTCTAGTAGTCTTTTTCGGGCATAGAGAAAGAGTTGAATCAG
66 CCCTTACTCTA--A--CTTTTT-GGGCATAGACAAAGAGTTGAATCAG
* * ** * * *
2467 GAGAGCTATACATTCGGGGTAATCACACGATCGGGGCCAAGTGGCGCAAACAAAAAGAGATAGAA
1 GAAAGCTATACATTCGGGGTAATCACTCGATTAGGGCCAGGTGGCACAAACAAAAAGAGACA-AA
*
2532 GCCCTTACTCTA
65 ACCCTTACTCTA
2544 CCAACCCTTT
Statistics
Matches: 159, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
105 7 0.04
106 1 0.01
107 56 0.35
108 1 0.01
110 1 0.01
112 6 0.04
113 74 0.47
114 13 0.08
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (108 bp):
GAAAGCTATACATTCGGGGTAATCACTCGATTAGGGCCAGGTGGCACAAACAAAAAGAGACAAAA
CCCTTACTCTAACTTTTTGGGCATAGACAAAGAGTTGAATCAG
Found at i:2561 original size:113 final size:112
Alignment explanation
Indices: 2250--2583 Score: 297
Period size: 113 Copynumber: 3.0 Consensus size: 112
2240 AATGTTAGAA
* * * * * ***
2250 AGCTATACATTCGGAGTAATCACTCGATTAGGGCCAGGCGGCACAAACAAAAAGAGAGTCTTTAC
1 AGCTATACATTCGGGGTAATCACACGATCAGGGCCAAGTGGCACAAACAAAAAGAGA--CAAAAC
** * *
2315 CC-T--TC--CAA--CTTTTTTGGCATAGACAAAGAGTTGAATTAGGAA
64 CCTTACTCTACAACCCTTTTACGGCATAGACAAAGAGTTGAATCAGGAG
* ** * * *
2357 AGCTATATATTCGGGGTAATCACTTGATTAGGGTCAGGTGGCACAAACAAAAAGAGACAAAACCC
1 AGCTATACATTCGGGGTAATCACACGATCAGGGCCAAGTGGCACAAACAAAAAGAGACAAAACCC
** ** * *
2422 TTACTCTAGTAGTCTTTTTCGGGCATAGAGAAAGAGTTGAATCAGGAG
66 TTACTCTACAACCCTTTTAC-GGCATAGACAAAGAGTTGAATCAGGAG
* * * *
2470 AGCTATACATTCGGGGTAATCACACGATCGGGGCCAAGTGGCGCAAACAAAAAGAGATAGAAGCC
1 AGCTATACATTCGGGGTAATCACACGATCAGGGCCAAGTGGCACAAACAAAAAGAGACA-AAACC
* *
2535 CTTACTCTACCAACCCTTTTAC-GCATAGATAGAGAGTTGAATCAGGAG
65 CTTACTCTA-CAACCCTTTTACGGCATAGACAAAGAGTTGAATCAGGAG
2583 A
1 A
2584 ACAACAGACT
Statistics
Matches: 186, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
105 5 0.03
106 1 0.01
107 52 0.28
108 2 0.01
110 1 0.01
112 6 0.03
113 99 0.53
114 13 0.07
115 7 0.04
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (112 bp):
AGCTATACATTCGGGGTAATCACACGATCAGGGCCAAGTGGCACAAACAAAAAGAGACAAAACCC
TTACTCTACAACCCTTTTACGGCATAGACAAAGAGTTGAATCAGGAG
Found at i:3433 original size:18 final size:18
Alignment explanation
Indices: 3410--3444 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3400 ATCAGTTAAG
3410 CTTAACTCAAACAGTAAA
1 CTTAACTCAAACAGTAAA
*
3428 CTTAACTCAAATAGTAA
1 CTTAACTCAAACAGTAA
3445 GGATGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.26
Consensus pattern (18 bp):
CTTAACTCAAACAGTAAA
Found at i:15492 original size:13 final size:14
Alignment explanation
Indices: 15474--15506 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15464 ATAAAATGTA
15474 CTCTCTAGTCTCTCT
1 CTCTCTAG-CTCTCT
15489 CTCTCTAG-TCTCT
1 CTCTCTAGCTCTCT
15502 CTCTC
1 CTCTC
15507 CAGTTTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
15 8 0.44
ACGTcount: A:0.06, C:0.42, G:0.06, T:0.45
Consensus pattern (14 bp):
CTCTCTAGCTCTCT
Found at i:15494 original size:15 final size:15
Alignment explanation
Indices: 15474--15506 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
15464 ATAAAATGTA
15474 CTCTCTAGTCTCTCT
1 CTCTCTAGTCTCTCT
15489 CTCTCTAGTCTCTCT
1 CTCTCTAGTCTCTCT
15504 CTC
1 CTC
15507 CAGTTTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.42, G:0.06, T:0.45
Consensus pattern (15 bp):
CTCTCTAGTCTCTCT
Found at i:17376 original size:18 final size:17
Alignment explanation
Indices: 17355--17393 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
17345 GTGATGATGA
17355 TGATGAGAGTGATTCCAG
1 TGATGAGAG-GATTCCAG
17373 TGAT--GAGGATTCCAG
1 TGATGAGAGGATTCCAG
17388 TGATGA
1 TGATGA
17394 AGACAGTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
15 12 0.63
16 3 0.16
18 4 0.21
ACGTcount: A:0.28, C:0.10, G:0.33, T:0.28
Consensus pattern (17 bp):
TGATGAGAGGATTCCAG
Found at i:17383 original size:15 final size:15
Alignment explanation
Indices: 17365--17393 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17355 TGATGAGAGT
17365 GATTCCAGTGATGAG
1 GATTCCAGTGATGAG
17380 GATTCCAGTGATGA
1 GATTCCAGTGATGA
17394 AGACAGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.28
Consensus pattern (15 bp):
GATTCCAGTGATGAG
Found at i:18392 original size:21 final size:21
Alignment explanation
Indices: 18368--18409 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18358 CTGATTTCCT
18368 GTACTCTTAAAAGCCATTGCC
1 GTACTCTTAAAAGCCATTGCC
18389 GTACTCTTAAAAGCCATTGCC
1 GTACTCTTAAAAGCCATTGCC
18410 ACAAGCAGCA
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:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (21 bp):
GTACTCTTAAAAGCCATTGCC
Found at i:20336 original size:41 final size:41
Alignment explanation
Indices: 20279--20358 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
20269 AAAAGGTTAC
20279 GTACTAAAATACGCTTTAATTTAATTAATTTACGTACTACT
1 GTACTAAAATACGCTTTAATTTAATTAATTTACGTACTACT
* *
20320 GTACTAATATATGCTTTAATTTAATTAATTTACGTACTA
1 GTACTAAAATACGCTTTAATTTAATTAATTTACGTACTA
20359 ATTTAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (41 bp):
GTACTAAAATACGCTTTAATTTAATTAATTTACGTACTACT
Found at i:20360 original size:21 final size:21
Alignment explanation
Indices: 20295--20370 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
20285 AAATACGCTT
20295 TAATTTAATTAATTTACGTAC
1 TAATTTAATTAATTTACGTAC
* * * * * *
20316 TACTGT-ACTAATATATGCT-T
1 TAATTTAATTAATTTACG-TAC
20336 TAATTTAATTAATTTACGTAC
1 TAATTTAATTAATTTACGTAC
20357 TAATTTAATTAATT
1 TAATTTAATTAATT
20371 AGTTTGCATT
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
20 13 0.32
21 27 0.68
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (21 bp):
TAATTTAATTAATTTACGTAC
Found at i:23818 original size:33 final size:35
Alignment explanation
Indices: 23781--23853 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
23771 TTTTTCCTTT
23781 TTTTTAAAT-A-AATTCCCTTACTCTCCTATTTGA
1 TTTTTAAATAACAATTCCCTTACTCTCCTATTTGA
***
23814 TTTTTTTTTAACAATTCCCTTACTCTCCTATTTGA
1 TTTTTAAATAACAATTCCCTTACTCTCCTATTTGA
23849 TTTTT
1 TTTTT
23854 TTTACAACCT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 6 0.17
34 1 0.03
35 28 0.80
ACGTcount: A:0.22, C:0.21, G:0.03, T:0.55
Consensus pattern (35 bp):
TTTTTAAATAACAATTCCCTTACTCTCCTATTTGA
Found at i:24209 original size:200 final size:204
Alignment explanation
Indices: 23814--24214 Score: 641
Period size: 212 Copynumber: 1.9 Consensus size: 204
23804 TCCTATTTGA
23814 TTTTTTTTTAACAATTCCCTTACTCTCCTATTTGATTTTTTTTACAACCTCGAGTTCAATAGCCA
1 TTTTTTTTTAACAATTCCCTTACTCTCCTATTTGATTTTTTTTACAACCTCGAGTTCAATAGCCA
23879 CATTAAGTCTAAGTCTCGGTTCAAGTAGGATTTATAGTTCATTTAACCTCGACTAATTCAAAGTC
66 CATTAAGTCTAAGTCTCGGTTCAAGTAGGATTTATAGTTCATTTAACCTCGACTAATTCAAAGTC
***
23944 GAGTCGAGTCGTGTCACGTTCAACCCCCCGAGTTTTGTATTTACATTAAGTCTCGATTCAAGTAG
131 GAGTC--G-CGTGTCACGTTCAACCCCCC-----TTGTAACCACATTAAGTCTCGATTCAAGTAG
24009 GATTCAATTCCTTTAAT
188 GATTCAATTCCTTTAAT
*
24026 TTTTTTTTTAGCAATTCCCTTACTCTCCTATTTGATTTTTTTTACAACCTCGAGTAT-AATAGCC
1 TTTTTTTTTAACAATTCCCTTACTCTCCTATTTGATTTTTTTTACAACCTCGAGT-TCAATAGCC
24090 ACATTAAGTCTAAGTCTCGGTTCAAGTAGGATTTATAGTTCATTTAACCTCGACTAATTCAAAGT
65 ACATTAAGTCTAAGTCTCGGTTCAAGTAGGATTTATAGTTCATTTAACCTCGACTAATTCAAAGT
*
24155 CGAGTC-CG-GTCACGTTTAA-CCCCC-TGTAACCACATTAAGTCTCGATTCAAGTAGGATTCA
130 CGAGTCGCGTGTCACGTTCAACCCCCCTTGTAACCACATTAAGTCTCGATTCAAGTAGGATTCA
24215 CAGCTACATT
Statistics
Matches: 183, Mismatches: 5, Indels: 14
0.91 0.02 0.07
Matches are distributed among these distances:
200 33 0.18
206 5 0.03
207 10 0.05
208 2 0.01
212 132 0.72
213 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (204 bp):
TTTTTTTTTAACAATTCCCTTACTCTCCTATTTGATTTTTTTTACAACCTCGAGTTCAATAGCCA
CATTAAGTCTAAGTCTCGGTTCAAGTAGGATTTATAGTTCATTTAACCTCGACTAATTCAAAGTC
GAGTCGCGTGTCACGTTCAACCCCCCTTGTAACCACATTAAGTCTCGATTCAAGTAGGATTCAAT
TCCTTTAAT
Found at i:24340 original size:188 final size:186
Alignment explanation
Indices: 24100--24515 Score: 563
Period size: 188 Copynumber: 2.2 Consensus size: 186
24090 ACATTAAGTC
* * * *
24100 TAAGTCTCGGTTCAAGTAGGATTTATAG-TTCATTTAACCTCGACTAATTCAAAGTCGAGTCCG-
1 TAAGTCTCGGTTCAAGTAGGATTCATAGCTACATTTAACCCCGACTAATTCAAAGTCGAAT-CGA
* *
24163 GTCACGTT-TAACCC-CCT-GTAACCACATTAAGTCTCGATTCAAGTAGGATTCACAGCTACATT
65 GTCACGTTGAAACCCGCCTGGTAACCACATTAAGTCTCGATTCAAGTAGGACTCACAGCTACATT
* *
24225 TAATCCTAACAAATTCAAAGTCGAGTCGAATCACATTGAACCACATAGTTTGGTAACCACAT
130 TAACCCTAACAAATTCAAAGTCGA---G--TCACATTGAACCACATAGTTCGGTAACCACAT
* * *
24287 TAAGTCTCAGTTCAAGTAGGATTCATAGCTACATTTAACCCCGACTAATTCAAAGTTGAATGGAG
1 TAAGTCTCGGTTCAAGTAGGATTCATAGCTACATTTAACCCCGACTAATTCAAAGTCGAATCGAG
** * *
24352 TCACGTTGAAACCCGAGTTTGGTAGCCACATTAAGTCTCGATTCAAGTAGGACTCATAGCTACAT
66 TCACGTTGAAACCC--GCCTGGTAACCACATTAAGTCTCGATTCAAGTAGGACTCACAGCTACAT
* *
24417 TTAACCCTGACAAATTCAAAGTCGAGTCACATTGAACCACATAGTTCGGTAACCATAT
129 TTAACCCTAACAAATTCAAAGTCGAGTCACATTGAACCACATAGTTCGGTAACCACAT
*
24475 TAAGTCTTGGTTCAAGTAGGATTCATAGCTACATTTAACCC
1 TAAGTCTCGGTTCAAGTAGGATTCATAGCTACATTTAACCC
24516 TGATAGTTAC
Statistics
Matches: 203, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
187 27 0.13
188 105 0.52
189 5 0.02
190 1 0.00
192 1 0.00
193 64 0.32
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (186 bp):
TAAGTCTCGGTTCAAGTAGGATTCATAGCTACATTTAACCCCGACTAATTCAAAGTCGAATCGAG
TCACGTTGAAACCCGCCTGGTAACCACATTAAGTCTCGATTCAAGTAGGACTCACAGCTACATTT
AACCCTAACAAATTCAAAGTCGAGTCACATTGAACCACATAGTTCGGTAACCACAT
Found at i:24409 original size:96 final size:97
Alignment explanation
Indices: 24100--24515 Score: 450
Period size: 97 Copynumber: 4.4 Consensus size: 97
24090 ACATTAAGTC
* * * * *
24100 TAAGTCTCGGTTCAAGTAGGATTTATAG-TTCATTTAACCTCGACTAATTCAAAGTCGAGTCCG-
1 TAAGTCTCGATTCAAGTAGGATTCATAGCTACATTTAACCCCGACAAATTCAAAGTCGAGT-CGA
* * **
24163 GTCACGTTTAACC-C----CCT-GTAACCACAT
65 GTCACATTGAACCACATAGTTTGGTAACCACAT
* * ** *
24190 TAAGTCTCGATTCAAGTAGGATTCACAGCTACATTTAATCCTAACAAATTCAAAGTCGAGTCGAA
1 TAAGTCTCGATTCAAGTAGGATTCATAGCTACATTTAACCCCGACAAATTCAAAGTCGAGTCGAG
24255 TCACATTGAACCACATAGTTTGGTAACCACAT
66 TCACATTGAACCACATAGTTTGGTAACCACAT
* * * *
24287 TAAGTCTC-AGTTCAAGTAGGATTCATAGCTACATTTAACCCCGACTAATTCAAAGTTGAATGGA
1 TAAGTCTCGA-TTCAAGTAGGATTCATAGCTACATTTAACCCCGACAAATTCAAAGTCGAGTCGA
* * *
24351 GTCACGTTGAAACC-C-GAGTTTGGTAGCCACAT
65 GTCACATTG-AACCACATAGTTTGGTAACCACAT
* *
24383 TAAGTCTCGATTCAAGTAGGACTCATAGCTACATTTAACCCTGACAAATTC-AA----AGTCGAG
1 TAAGTCTCGATTCAAGTAGGATTCATAGCTACATTTAACCCCGACAAATTCAAAGTCGAGTCGAG
* *
24443 TCACATTGAACCACATAGTTCGGTAACCATAT
66 TCACATTGAACCACATAGTTTGGTAACCACAT
* *
24475 TAAGTCTTGGTTCAAGTAGGATTCATAGCTACATTTAACCC
1 TAAGTCTCGATTCAAGTAGGATTCATAGCTACATTTAACCC
24516 TGATAGTTAC
Statistics
Matches: 274, Mismatches: 39, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
90 31 0.11
91 49 0.18
92 52 0.19
95 2 0.01
96 63 0.23
97 73 0.27
98 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (97 bp):
TAAGTCTCGATTCAAGTAGGATTCATAGCTACATTTAACCCCGACAAATTCAAAGTCGAGTCGAG
TCACATTGAACCACATAGTTTGGTAACCACAT
Found at i:30441 original size:16 final size:16
Alignment explanation
Indices: 30420--30451 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30410 GAGCTTCTAA
30420 TAATTTGATAACACTT
1 TAATTTGATAACACTT
30436 TAATTTGATAACACTT
1 TAATTTGATAACACTT
30452 GAAAGAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (16 bp):
TAATTTGATAACACTT
Found at i:37957 original size:31 final size:31
Alignment explanation
Indices: 37919--38002 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
37909 CTTAAGTCCA
37919 TAACGTTGCAAAATCGGCTCAAACCAATCCC
1 TAACGTTGCAAAATCGGCTCAAACCAATCCC
* * * * * *
37950 TAACGTTGTAAAATTGACTCAAATCAGTCTC
1 TAACGTTGCAAAATCGGCTCAAACCAATCCC
37981 TAACGTTGCAAAATCGGCTCAA
1 TAACGTTGCAAAATCGGCTCAA
38003 GCTTATGACC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (31 bp):
TAACGTTGCAAAATCGGCTCAAACCAATCCC
Found at i:41674 original size:1 final size:1
Alignment explanation
Indices: 41668--41694 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
41658 TGAGAAGAGG
41668 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
41695 AATTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:42655 original size:7 final size:7
Alignment explanation
Indices: 42631--42663 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
42621 AAACCAGATT
42631 TATTAT-
1 TATTATA
42637 TATTAT-
1 TATTATA
42643 TATTATA
1 TATTATA
42650 TATTATA
1 TATTATA
42657 TATTATA
1 TATTATA
42664 AGAATACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TATTATA
Found at i:44792 original size:16 final size:16
Alignment explanation
Indices: 44767--44800 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44757 CCTACCGAAT
*
44767 AATAATTCTAAAACAA
1 AATAACTCTAAAACAA
*
44783 AATAACTCTAACACAA
1 AATAACTCTAAAACAA
44799 AA
1 AA
44801 AAAATTCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (16 bp):
AATAACTCTAAAACAA
Done.