Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold526
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: 43811
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Found at i:6922 original size:39 final size:40
Alignment explanation
Indices: 6753--7014 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
6743 TTGAATGCTG
* * * * * *
6753 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
6793 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
6833 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
6873 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
6912 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
6952 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
6991 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
7015 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 73 0.37
40 117 0.59
41 8 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:6933 original size:79 final size:78
Alignment explanation
Indices: 6753--7014 Score: 303
Period size: 79 Copynumber: 3.3 Consensus size: 78
6743 TTGAATGCTG
* * * * * * *
6753 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGG-CA
*
6816 TTGTGCGAGATACTAAA
63 TTGTGCGAG-TTCTAAA
*
6833 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-
*
6898 GTGCGAGTTTTAAA
65 GTGCGAGTTCTAAA
* * * *
6912 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
*
6977 TGTGAGTTACTAAA
66 TGCGAGTT-CTAAA
* *
6991 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
7015 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
78 8 0.05
79 94 0.59
80 51 0.32
81 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTCTAAA
Found at i:7034 original size:79 final size:79
Alignment explanation
Indices: 6792--7049 Score: 218
Period size: 79 Copynumber: 3.3 Consensus size: 79
6782 AAGTGAATAT
* * * * * * *
6792 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAG-TTCTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
6856 TCGTGCGAGTTA-TTAA
64 TCGAACGAG-GAGCTAA
* * *
6872 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAATCCGGGTTAAGTCCCGAAGGCAGTC
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTCTAAAACCGGGCTAAGTCCCGAAGGCAGTC
** ** *
6937 GTGCGAGTTGTTAA
66 GAACGAGGAGCTAA
* * * *
6951 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-CTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
7015 TGAACGAGGAGCTAT
65 CGAACGAGGAGCTAA
*
7030 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
7050 TACGTGATTT
Statistics
Matches: 152, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
78 23 0.15
79 101 0.66
80 28 0.18
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTCTAAAACCGGGCTAAGTCCCGAAGGCAGTC
GAACGAGGAGCTAA
Found at i:14777 original size:40 final size:40
Alignment explanation
Indices: 14694--14956 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
14684 TTGAATGCTG
* * * * * *
14694 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
14734 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
14774 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
14814 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
14854 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
14894 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
14933 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
14957 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:14976 original size:79 final size:80
Alignment explanation
Indices: 14733--14991 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
14723 AAGTGAATAT
* * * * * * *
14733 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
14797 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
14813 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
14878 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
14893 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
14957 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
14972 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
14992 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:21245 original size:12 final size:12
Alignment explanation
Indices: 21228--21253 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21218 CATTCCGAAG
21228 TATATATATACA
1 TATATATATACA
21240 TATATATATACA
1 TATATATATACA
21252 TA
1 TA
21254 ACTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:21766 original size:28 final size:29
Alignment explanation
Indices: 21701--21799 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 29
21691 CATGAGACTG
* *
21701 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
21730 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
* *
21758 GCACTAAGTGGGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
21786 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
21800 GGCTTATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
27 4 0.06
28 40 0.65
29 14 0.23
30 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:22612 original size:12 final size:12
Alignment explanation
Indices: 22595--22621 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22585 TAGAAACCAA
22595 TGGCATAAGTAT
1 TGGCATAAGTAT
22607 TGGCATAAGTAT
1 TGGCATAAGTAT
22619 TGG
1 TGG
22622 AGCTCTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (12 bp):
TGGCATAAGTAT
Found at i:25146 original size:22 final size:22
Alignment explanation
Indices: 25121--25197 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
25111 ATTTTGACCA
*
25121 AAACCATACCATTATCGTACCT
1 AAACCAAACCATTATCGTACCT
*
25143 AAACCAAAAACCATT-TCGTACTT
1 AAACC--AAACCATTATCGTACCT
* *
25166 AAACTTAAACCATTA-CGTGCCT
1 AAAC-CAAACCATTATCGTACCT
25188 AAACCTAAAC
1 AAACC-AAAC
25198 TATCTTCGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
22 26 0.59
23 11 0.25
24 7 0.16
ACGTcount: A:0.42, C:0.29, G:0.05, T:0.25
Consensus pattern (22 bp):
AAACCAAACCATTATCGTACCT
Found at i:25163 original size:23 final size:23
Alignment explanation
Indices: 25128--25192 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
25118 CCAAAACCAT
25128 ACCATTATCGTACCTAAACCAAAA
1 ACCATT-TCGTACCTAAACCAAAA
* **
25152 ACCATTTCGTACTTAAA-CTTAA
1 ACCATTTCGTACCTAAACCAAAA
* *
25174 ACCATTACGTGCCTAAACC
1 ACCATTTCGTACCTAAACC
25193 TAAACTATCT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 17 0.50
23 11 0.32
24 6 0.18
ACGTcount: A:0.38, C:0.29, G:0.06, T:0.26
Consensus pattern (23 bp):
ACCATTTCGTACCTAAACCAAAA
Found at i:26787 original size:20 final size:20
Alignment explanation
Indices: 26759--26822 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
26749 GTTGATAGAA
* *
26759 AGCTAAATTGAGCTCGAACG
1 AGCTGAATTGAGCTCAAACG
*
26779 AGCTGAATTGAGCTCAAATG
1 AGCTGAATTGAGCTCAAACG
* *
26799 AGCTG-ATCGGAGCTGAAACG
1 AGCTGAAT-TGAGCTCAAACG
26819 AGCT
1 AGCT
26823 AAAGGAACTG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
19 2 0.05
20 35 0.95
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (20 bp):
AGCTGAATTGAGCTCAAACG
Found at i:26802 original size:30 final size:30
Alignment explanation
Indices: 26759--26825 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
26749 GTTGATAGAA
26759 AGCTAAATTGAGCTCGAAC-GAGCTGAATTG
1 AGCTAAATTGAGCT-GAACGGAGCTGAATTG
* **
26789 AGCTCAAA-TGAGCTGATCGGAGCTGAAACG
1 AGCT-AAATTGAGCTGAACGGAGCTGAATTG
26819 AGCTAAA
1 AGCTAAA
26826 GGAACTGGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 6 0.19
30 23 0.72
31 3 0.09
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (30 bp):
AGCTAAATTGAGCTGAACGGAGCTGAATTG
Found at i:28448 original size:24 final size:24
Alignment explanation
Indices: 28421--28475 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
28411 CCTTTTTGAT
28421 CCATTTCATACCAAAAATCCCATA
1 CCATTTCATACCAAAAATCCCATA
* * *
28445 CCATTTCGTACCACAAATCTCATA
1 CCATTTCATACCAAAAATCCCATA
28469 CCATTTC
1 CCATTTC
28476 TGTGACAGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.29
Consensus pattern (24 bp):
CCATTTCATACCAAAAATCCCATA
Found at i:30428 original size:40 final size:40
Alignment explanation
Indices: 30191--30414 Score: 287
Period size: 40 Copynumber: 5.6 Consensus size: 40
30181 TGAATGATGT
* * * *
30191 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
30231 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
30271 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30309 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
30350 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30390 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30415 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 34 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:30437 original size:119 final size:119
Alignment explanation
Indices: 30190--30421 Score: 299
Period size: 119 Copynumber: 1.9 Consensus size: 119
30180 TTGAATGATG
* *
30190 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* **
30255 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * *
30309 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* * *
30372 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGT
30422 AGCTATATCT
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
118 3 0.03
119 69 0.71
120 25 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:30445 original size:119 final size:119
Alignment explanation
Indices: 30190--30447 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
30180 TTGAATGATG
* * *
30190 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAATCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* **
30255 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * * *
30309 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAATCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* * * *
30372 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
30429 T-CTGGTTAAATTCCGAAGG
1 TCCGGGTTAAATCCCGAAGG
30448 TATGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 86 0.73
120 29 0.25
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAATCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:38425 original size:41 final size:41
Alignment explanation
Indices: 38274--38502 Score: 265
Period size: 41 Copynumber: 5.6 Consensus size: 41
38264 TTGAATGATG
* * *
38274 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
38314 TCCGGACTATAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGC--TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38356 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38395 TCCGGGTTAAGTCCCGAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCG-AAGGCATTTGTGCGAGTTACTATAA
38437 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
38477 CCCGGGCTATGTCCGGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38503 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 15, Indels: 19
0.83 0.08 0.10
Matches are distributed among these distances:
39 34 0.21
40 39 0.24
41 58 0.35
42 25 0.15
43 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:38516 original size:81 final size:82
Alignment explanation
Indices: 38275--38502 Score: 263
Period size: 81 Copynumber: 2.8 Consensus size: 82
38265 TGAATGATGT
* * * *
38275 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATCCGGACTATAAGATCC-GAAGGC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAATCCGGGCTAT--G-TCCGGAAGGC
*
38337 ATTTGTGCGAGATACTA-ATT
62 ATTTGTGCGAGATACTATATA
* * * *
38357 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCGGGCTATGT-CCGGAAGGCATT
*
38420 TGTGCGAGTTACTATA-A
65 TGTGCGAGATACTATATA
*
38437 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCCGGGCTATGTCCGGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCGGGCTATGTCCGGAAGGCATTT
38502 G
66 G
38503 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
78 1 0.01
79 3 0.02
80 31 0.25
81 62 0.50
82 27 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (82 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCGGGCTATGTCCGGAAGGCATTT
GTGCGAGATACTATATA
Done.