Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold595
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: 27622
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Found at i:95 original size:14 final size:14
Alignment explanation
Indices: 58--96 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 14
48 ATTTTATATG
58 TTAATA-ATTTATT
1 TTAATATATTTATT
71 TT-ATATA--TATT
1 TTAATATATTTATT
82 TTAATATATTTATT
1 TTAATATATTTATT
96 T
1 T
97 ATGTTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
11 6 0.27
12 8 0.36
13 3 0.14
14 5 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTAATATATTTATT
Found at i:97 original size:24 final size:24
Alignment explanation
Indices: 52--133 Score: 73
Period size: 24 Copynumber: 3.4 Consensus size: 24
42 TATAAAATTT
*
52 TATATGTTAATA-ATTTATTTTATA
1 TATATTTTAATATATTTA-TTTATA
*
76 TATATTTTAATATATTTATTTATG
1 TATATTTTAATATATTTATTTATA
*
100 T-TATATTT-ATATTATTT-TTCATA
1 TATAT-TTTAATA-TATTTATTTATA
123 CTATATTTTAA
1 -TATATTTTAA
134 CTATTTTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
23 10 0.21
24 29 0.60
25 9 0.19
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (24 bp):
TATATTTTAATATATTTATTTATA
Found at i:4881 original size:20 final size:20
Alignment explanation
Indices: 4853--4926 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
4843 TTTTACCCTG
4853 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
4873 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
4893 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
4913 ATGTATCGATACAT
1 ATGTATCGATACAT
4927 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:4968 original size:20 final size:20
Alignment explanation
Indices: 4943--4996 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
4933 TTTTACCTAG
4943 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
*
4963 ATGTATCAATACATTGAATA
1 ATGTATCGATACATTGAATA
4983 ATGTATCGATACAT
1 ATGTATCGATACAT
4997 CTAGTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:12868 original size:27 final size:27
Alignment explanation
Indices: 12831--13597 Score: 1165
Period size: 27 Copynumber: 28.0 Consensus size: 27
12821 GTGGCATTTT
* *
12831 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* * *
12859 TTTTTAAGTCCATAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
12886 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
12914 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
12941 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
12968 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
12995 CTTTTAAGTCCACAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
13023 CTTTTAAGTCCACAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
13051 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
13078 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
13105 CTTTTAAGTCCACAACTCTGTGGCATGC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
13133 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
13160 CTTTTAAGTCCACAACTCTGTGGCATGC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
13188 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * **
13215 TTTTTAAGTCCACAACTCTGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
13242 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
13269 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
13296 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
13323 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
13351 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * *
13379 CTTTTAAGACCATAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
13406 CTTTTAAGTCCATAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
13433 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
13461 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
13488 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
13516 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
13543 CTTTTAAGTCCACAACTCTGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
13570 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
13597 C
1 C
13598 ATTCCAAAGC
Statistics
Matches: 682, Mismatches: 50, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
27 451 0.66
28 231 0.34
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:12898 original size:55 final size:54
Alignment explanation
Indices: 12831--13597 Score: 1165
Period size: 55 Copynumber: 14.0 Consensus size: 54
12821 GTGGCATTTT
* * * *
12831 CTTTTAAAGTCCACAACTCTGTGGCATCTTTTTAAGTCCATAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* *
12886 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
*
12941 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* *
12995 CTTTTAAGTCCACAACTCCATGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCA-CC
*
13051 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* *
13105 CTTTTAAGTCCACAACTCTGTGGCATGCCTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCACC
* *
13160 CTTTTAAGTCCACAACTCTGTGGCATGCCTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCACC
* * *
13215 TTTTTAAGTCCACAACTCTGTGGCATTCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* *
13269 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
*
13323 CTTTTAAGTCCACAACTCTGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCA-CC
* * * * *
13379 CTTTTAAGACCATAACTCTGTGGCACCCTTTTAAGTCCATAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* *
13433 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCACC
*
13488 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
13543 CTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
13597 C
1 C
13598 ATTCCAAAGC
Statistics
Matches: 664, Mismatches: 41, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
54 269 0.41
55 325 0.49
56 70 0.11
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:13434 original size:328 final size:328
Alignment explanation
Indices: 12831--13597 Score: 1259
Period size: 328 Copynumber: 2.3 Consensus size: 328
12821 GTGGCATTTT
* * * *
12831 CTTTTAAAGTCCACAACTCTGTGGCATCTTTTTAAGTCCATAACTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTAAGT
* * *
12896 CCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
65 CCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
12961 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCATCCCTT
130 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCATCCCTT
* *
13026 TTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCAC
195 TTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCAC
*
13091 AACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATGC-CTTTTAAGACCACAACTCCGTG
260 AACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAT-CTCTTTTAAGACCACAACTCCGTG
13155 GCACC
324 GCACC
*
13160 CTTTT-AAGTCCACAACTCTGTGGCATGCCTTTTAAGACCACAACTCCGTGGCACCTTTTTAAGT
1 CTTTTAAAGTCCACAACTCTGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGT
* *
13224 CCACAACTCTGTGGCATTCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCG
65 CCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
**
13289 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCCTT
130 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCATCCCTT
* * *
13354 TTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCATAACTCTGTGGCACCCTTTTAAGTCCAT
195 TTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCAC
* * *
13419 AACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGG
260 AACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGACCACAACTCCGTGG
13484 CACC
325 CACC
* * *
13488 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTC
* *
13553 CACAACTCTGTGGCATCCTTTTAAATCCACAACTCTGTGGCACCC
66 CACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
13598 ATTCCAAAGC
Statistics
Matches: 406, Mismatches: 29, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
327 1 0.00
328 359 0.88
329 46 0.11
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (328 bp):
CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTC
CACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
GGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCATCCCTTT
TAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACA
ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGACCACAACTCCGTGGC
ACC
Found at i:14104 original size:32 final size:32
Alignment explanation
Indices: 13580--14090 Score: 790
Period size: 32 Copynumber: 16.0 Consensus size: 32
13570 CTTTTAAATC
* * *
13580 CACAACTCTGTGGC-ACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
13611 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
13643 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
13675 CACAAGTCGGTAGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
13707 CACAAGTCGGTGGCAACCCATTCCAAAGCTCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
13739 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
13771 CACAAGTCGGTGGCAACCCATTTCAAAGCACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
13803 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
13835 CACAAGTCAATGGCAACCTATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
13867 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
13899 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
13931 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
13963 CACAAGTCAGTGGCAACCCATTCCAAATCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
13995 CATAAGTCGGTAGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
14027 CACAAGTCAGTGGCGATCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
14059 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
14091 TGTAAATCAG
Statistics
Matches: 437, Mismatches: 42, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
31 12 0.03
32 425 0.97
ACGTcount: A:0.32, C:0.34, G:0.17, T:0.16
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:14672 original size:20 final size:20
Alignment explanation
Indices: 14644--14714 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
14634 TTTTACCCTG
14644 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
14664 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
14684 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
14704 ATGTATCGATA
1 ATGTATCGATA
14715 TATTATGTCT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:14760 original size:20 final size:20
Alignment explanation
Indices: 14735--14788 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
14725 TTTTACCTAG
14735 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
14755 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
14775 ATGTATCGATACAT
1 ATGTATCGATACAT
14789 CTAGTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:21640 original size:18 final size:18
Alignment explanation
Indices: 21595--21645 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
21585 ATTAAGTATA
* *
21595 AATCATATTAAAATTTTT
1 AATCATATTTAATTTTTT
21613 AAT-ATCATTTAATTTTTT
1 AATCAT-ATTTAATTTTTT
* *
21631 ACTCATATTTTATTT
1 AATCATATTTAATTT
21646 ATTATTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
AATCATATTTAATTTTTT
Found at i:26291 original size:16 final size:16
Alignment explanation
Indices: 26222--26292 Score: 65
Period size: 16 Copynumber: 4.3 Consensus size: 16
26212 TGTTTTAAAT
26222 ATATTTAAGATATTATATA
1 ATATTTAA-ATA-TAT-TA
*
26241 A-ATTTTAATATATTA
1 ATATTTAAATATATTA
* *
26256 ATAATTT-ATTATATGA
1 AT-ATTTAAATATATTA
26272 ATATTTAAATATATTA
1 ATATTTAAATATATTA
26288 ATATT
1 ATATT
26293 ATATTTATGT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
15 7 0.16
16 24 0.55
17 7 0.16
18 5 0.11
19 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
ATATTTAAATATATTA
Found at i:26305 original size:11 final size:11
Alignment explanation
Indices: 26281--26324 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
26271 AATATTTAAA
26281 TATATTAATAT
1 TATATTAATAT
* *
26292 TATATTTATGT
1 TATATTAATAT
*
26303 TATATTCATAT
1 TATATTAATAT
*
26314 TATATAAATAT
1 TATATTAATAT
26325 AAATCATTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TATATTAATAT
Found at i:26308 original size:32 final size:32
Alignment explanation
Indices: 26215--26290 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
26205 TTTGACGTGT
**
26215 TTTAAATATATT--TAAGATATTATAT-AA-A
1 TTTAAATATATTAATAATTTATTATATGAATA
*
26243 TTTTAATATATTAATAATTTATTATATGAATA
1 TTTAAATATATTAATAATTTATTATATGAATA
26275 TTTAAATATATTAATA
1 TTTAAATATATTAATA
26291 TTATATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 11 0.28
30 11 0.28
31 2 0.05
32 16 0.40
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (32 bp):
TTTAAATATATTAATAATTTATTATATGAATA
Found at i:26769 original size:20 final size:21
Alignment explanation
Indices: 26739--26791 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
26729 AATATAAATA
26739 TAATATATATTTAAAATATT-T
1 TAAT-TATATTTAAAATATTAT
26760 TAATTATATTTAAAATATTAT
1 TAATTATATTTAAAATATTAT
*
26781 T-TTTATATTTA
1 TAATTATATTTA
26792 TTAAATGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 24 0.80
21 6 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTATATTTAAAATATTAT
Done.