Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01022337.1 Corchorus olitorius cultivar O-4 contig22370, 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: 18244
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Found at i:1838 original size:21 final size:21
Alignment explanation
Indices: 1814--1947 Score: 193
Period size: 21 Copynumber: 6.4 Consensus size: 21
1804 CTTAGGCAAT
*
1814 TCCAATGAGCTTGAAACCTT-C
1 TCCAATGAGCTTGGAA-CTTGC
*
1835 TCCAATGATCTTGGAACCTT-C
1 TCCAATGAGCTTGGAA-CTTGC
*
1856 TCCAATGAACTTGGAACCTT-C
1 TCCAATGAGCTTGGAA-CTTGC
1877 TCCAATGAGCTTGGAACTTGC
1 TCCAATGAGCTTGGAACTTGC
1898 TCCAATGAGCTTGGAACTTGC
1 TCCAATGAGCTTGGAACTTGC
1919 TCCAATGAGCTTGGAACTTGC
1 TCCAATGAGCTTGGAACTTGC
1940 TCCAATGA
1 TCCAATGA
1948 ACTTCTAGCA
Statistics
Matches: 108, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
20 3 0.03
21 105 0.97
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (21 bp):
TCCAATGAGCTTGGAACTTGC
Found at i:7246 original size:21 final size:21
Alignment explanation
Indices: 7220--7353 Score: 193
Period size: 21 Copynumber: 6.4 Consensus size: 21
7210 TACTAGAAGT
7220 TCATTGGAGCAA-GTTCCAAGC
1 TCATTGGAG-AAGGTTCCAAGC
7241 TCATTGGAGCAA-GTTCCAAGC
1 TCATTGGAG-AAGGTTCCAAGC
7262 TCATTGGAGCAA-GTTCCAAGC
1 TCATTGGAG-AAGGTTCCAAGC
*
7283 TCATTGGAGAAGGTTCCAAGT
1 TCATTGGAGAAGGTTCCAAGC
*
7304 TCATTGGAGAAGGTTCCAAGT
1 TCATTGGAGAAGGTTCCAAGC
*
7325 TCATTGGAGAAGGTTTCAAGC
1 TCATTGGAGAAGGTTCCAAGC
7346 TCATTGGA
1 TCATTGGA
7354 ATTGCCTAAG
Statistics
Matches: 109, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
20 2 0.02
21 107 0.98
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (21 bp):
TCATTGGAGAAGGTTCCAAGC
Found at i:12002 original size:52 final size:50
Alignment explanation
Indices: 11913--12068 Score: 206
Period size: 50 Copynumber: 3.1 Consensus size: 50
11903 AGAACCAGAA
* * *
11913 TTTTTGTAATAAGATTGCATTCCATTTGTAAGTCCAAGGTCAAAATTCAC
1 TTTTTATAATAAGATTGCATTCCATTTGTGAGTCCAAGATCAAAATTCAC
*
11963 TTTTCTTATAATAAGATTGCATTCCGTTTGTGA-TCCCAAGATCAAAATTCAC
1 -TTT-TTATAATAAGATTGCATTCCATTTGTGAGT-CCAAGATCAAAATTCAC
* * * *
12015 TTTTTATAATAAGATTGCATTCCATTTGTGAGACCAAGACCAAAGTTCGC
1 TTTTTATAATAAGATTGCATTCCATTTGTGAGTCCAAGATCAAAATTCAC
12065 TTTT
1 TTTT
12069 CGAAGGGCAT
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
50 45 0.48
51 7 0.08
52 41 0.44
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (50 bp):
TTTTTATAATAAGATTGCATTCCATTTGTGAGTCCAAGATCAAAATTCAC
Found at i:13105 original size:69 final size:69
Alignment explanation
Indices: 13028--13196 Score: 284
Period size: 69 Copynumber: 2.4 Consensus size: 69
13018 TCATAAGTCA
* * *
13028 AAACTCGTTTCCTTACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCGCATAGGCTTTTCCACA
1 AAACTCGTTTCCATACGAGTCAGTTCAAGCCTTGGTTCCATCCAAGCCACATAGGCTTTTCCACA
13093 AGAC
66 AGAC
*
13097 AAACTCGTTTCCATACAAGTCAGTTCAAGCCTTGGTTCCATCCAAGCCACATAGGCTTTTCCACA
1 AAACTCGTTTCCATACGAGTCAGTTCAAGCCTTGGTTCCATCCAAGCCACATAGGCTTTTCCACA
*
13162 AGCC
66 AGAC
*
13166 AAACTTGTTTCCATACGAGTCAGTTCAAGCC
1 AAACTCGTTTCCATACGAGTCAGTTCAAGCC
13197 ACGTAGGCTT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 93 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (69 bp):
AAACTCGTTTCCATACGAGTCAGTTCAAGCCTTGGTTCCATCCAAGCCACATAGGCTTTTCCACA
AGAC
Found at i:13196 original size:52 final size:52
Alignment explanation
Indices: 13139--13294 Score: 276
Period size: 52 Copynumber: 3.0 Consensus size: 52
13129 TGGTTCCATC
*
13139 CAAGCCACATAGGCTTTTCCACAAGCCAAACTTGTTTCCATACGAGTCAGTT
1 CAAGCCACATAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTT
* **
13191 CAAGCCACGTAGGCTTTTCCACAAGCCAAACTCGTTTCCATGTGAGTCAGTT
1 CAAGCCACATAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTT
13243 CAAGCCACATAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTT
1 CAAGCCACATAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTT
13295 TGAGCCTTGG
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 97 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (52 bp):
CAAGCCACATAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTT
Found at i:13328 original size:69 final size:69
Alignment explanation
Indices: 13243--13385 Score: 241
Period size: 69 Copynumber: 2.1 Consensus size: 69
13233 TGAGTCAGTT
* * * *
13243 CAAGCCACATAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTGAGCCTTGGTTC
1 CAAGCCACACAAGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAATTTAAGCCTTGGTTC
13308 CATC
66 CATC
*
13312 CAAGCCACACAAGCTTTTCCACAAGCCAAAGTCGTTTCCATACGAGTCAATTTAAGCCTTGGTTC
1 CAAGCCACACAAGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAATTTAAGCCTTGGTTC
13377 CATC
66 CATC
13381 CAAGC
1 CAAGC
13386 AACAGGGGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (69 bp):
CAAGCCACACAAGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAATTTAAGCCTTGGTTC
CATC
Found at i:13449 original size:173 final size:173
Alignment explanation
Indices: 13270--13584 Score: 418
Period size: 173 Copynumber: 1.8 Consensus size: 173
13260 TCCACAAGCC
* * *
13270 AAACTCGTTTCCATACGAGTCAGTTTGAGCCTTGGTTCCATCC-AAGCCACACAAGCTTTTCCAC
1 AAACTCGTTTCCATACGAGTCAGTTTAAGCCTCGATTCCATCCGAAGCC-CACAA-CTTTTCCAC
* * * *
13334 AAGCCAAAGTCGTTTCCATACGAGTCAATTTAAGCCTTGGTTCCATCCAAGCAACA-GGGGTTTT
64 AAGCCAAACTCGTTTCCATACGAGTCAATTCAAGCATTGGTTCCATCCAAACAACATGGGGTTTT
13398 CCATAAGCCAAGTTCATTTCCATATAAATCCAGTCTTCCAAGACT
129 CCATAAGCCAAGTTCATTTCCATATAAATCCAGTCTTCCAAGACT
* ** **** *
13443 AAACTCGTTTCCATACGAGTTAGTTTAAGCCTCGATTCCATCCGAATTCTTTGACTTTTCCATAA
1 AAACTCGTTTCCATACGAGTCAGTTTAAGCCTCGATTCCATCCGAAGCCCACAACTTTTCCACAA
* * * * *
13508 GTCAAACTCGTTTCCATGCGAGTCAGTTCAAGCATTGGTTCCATTCAAACAACATGGGTTTTTCC
66 GCCAAACTCGTTTCCATACGAGTCAATTCAAGCATTGGTTCCATCCAAACAACATGGGGTTTTCC
13573 ATAAGCCAAGTT
131 ATAAGCCAAGTT
13585 AATCAAGGTT
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
172 56 0.47
173 61 0.51
174 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (173 bp):
AAACTCGTTTCCATACGAGTCAGTTTAAGCCTCGATTCCATCCGAAGCCCACAACTTTTCCACAA
GCCAAACTCGTTTCCATACGAGTCAATTCAAGCATTGGTTCCATCCAAACAACATGGGGTTTTCC
ATAAGCCAAGTTCATTTCCATATAAATCCAGTCTTCCAAGACT
Found at i:16691 original size:154 final size:154
Alignment explanation
Indices: 16413--18145 Score: 2744
Period size: 154 Copynumber: 11.3 Consensus size: 154
16403 CTTTCTAACT
* * *
16413 AAAATAATTATAGTTAGGCCATAAACAATGGAAA-AAATCTGCATCGAGGGTTGCCAAATCGAAG
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAA--AGCATCGAGGTTTGCCAAATCGAAG
** * * *
16477 ACGATTCAAAACGGAACTAATGGGCCCCGAAAGGCACAAAATAACAAGTGTTCCAAATGAGCTAA
64 ACGATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAA
* * *
16542 AAACATCACAGTGAAC-ATATCTCACT
129 AAACTTCACAGTGGACTA-ATCTCACC
* * *
16568 AAAATGAATATACTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGTTTGCCAAATCGAAGAC
* *
16633 GATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
66 GATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
16698 ACTTCACAGTGGACTAATCTCACC
131 ACTTCACAGTGGACTAATCTCACC
*
16722 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAGGCATCGAAGG-TTGCCAAATCGAAGA
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCG-AGGTTTGCCAAATCGAAGA
* *
16786 CGATTCAAAATGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTTTTCCAAATGAGCTAAA
65 CGATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAA
16851 AACTTCACAGTGGACTAATCTCACC
130 AACTTCACAGTGGACTAATCTCACC
* * *
16876 AAAATGATTATAGTTAGGCCATACACAATGGAATGAAAAGCATTGAGGTTTGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGTTTGCCAAATCGAAGAC
*
16941 GATTCAAAACATCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
66 GATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
*
17006 ACTTCACACTGGACTAATCTCACC
131 ACTTCACAGTGGACTAATCTCACC
*
17030 -AAATGATTATAGTTTGGCCATAAACAATGGAAAG-AAAGACATCGAAGG-TTGCCAAATCGAAG
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAG-CATCG-AGGTTTGCCAAATCGAAG
*
17092 ACGATTCAAAAAGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAA
64 ACGATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAA
*
17157 AAACTTCACACTGGACTAATCTCACC
129 AAACTTCACAGTGGACTAATCTCACC
*
17183 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGTTTGCCAAATCGAAGAC
17248 GATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
66 GATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
17313 ACTTCACAGTGGACTAATCTCACC
131 ACTTCACAGTGGACTAATCTCACC
* *
17337 AAAATGATTATAGTTAGGCCATAAACAATGGAATGAAAAGCATTGAGGTTTGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGTTTGCCAAATCGAAGAC
*
17402 GATTCAAAACATCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
66 GATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
*
17467 ACTTCACACTGGACTAATCTCACC
131 ACTTCACAGTGGACTAATCTCACC
* *
17491 -AAATGATTATAGTTTGGCCATAAACAATAGAAAGAAAAGCATCGAAGGTTTG-CAAATCGAAGA
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCG-AGGTTTGCCAAATCGAAGA
* ** *
17554 CAATTCAAAACGGAACTAATGGGCCCCGATAGAG--CAAAATAACAAGTGTTCCAAATGAGCTAA
65 CGATTCAAAACGTCACTAATGGTCCCCGATAG-GCCCAAAATAACAAGTGTTCCAAATGAGCTAA
17617 AAACTTCACAGTGGACTAATCTCACC
129 AAACTTCACAGTGGACTAATCTCACC
17643 AAAATGATTATAGTTAGGCCATAAACAATGGAAAG-AAAGACATCGAAGG-TTGCCAAATCGAAG
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAG-CATCG-AGGTTTGCCAAATCGAAG
17706 ACGATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAAT-ACAA-TGTTCCAAATGAGCTAA
64 ACGATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAA
*
17769 AAACTTCACAGTGGACTTATCTCACC
129 AAACTTCACAGTGGACTAATCTCACC
* *
17795 AAAATGATTATAGTTAGGCCATAAACAATTGAAAGAAAGGCATCGAACGGTTT-CCAAATCGAAG
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCG-A-GGTTTGCCAAATCGAAG
17859 ACGATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAA
64 ACGATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAA
*
17924 AAACTTCACAGTGGACAAATCTCACC
129 AAACTTCACAGTGGACTAATCTCACC
* *
17950 AAAATGATTATAGTTAGGCCATAAAC-ATGGAAAAAAAAGCATTGAGGTTTGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGTTTGCCAAATCGAAGAC
* ** * * * *
18014 AATTCAAAACGGAACTAATGGGCCTCGATAGGCACAAAATAACAAGTGTTCCAAATGAGCCAAAA
66 GATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
18079 ACTTCACAGTGGACTAATCTCACC
131 ACTTCACAGTGGACTAATCTCACC
* * *
18103 AAAAGGATTATAGGTT-GGCCACAAACAATGGAAAGTAAAGCAT
1 AAAATGATTATA-GTTAGGCCATAAACAATGGAAAGAAAAGCAT
18146 TGACAGTGGA
Statistics
Matches: 1474, Mismatches: 80, Indels: 49
0.92 0.05 0.03
Matches are distributed among these distances:
152 154 0.10
153 479 0.32
154 732 0.50
155 106 0.07
156 3 0.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (154 bp):
AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGTTTGCCAAATCGAAGAC
GATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
ACTTCACAGTGGACTAATCTCACC
Found at i:17326 original size:461 final size:461
Alignment explanation
Indices: 16413--18145 Score: 2776
Period size: 461 Copynumber: 3.8 Consensus size: 461
16403 CTTTCTAACT
* *
16413 AAAATAATTATAGTTAGGCCATAAACAATGGAA--AAAATCTGCATCGAGGGTTGCCAAATCGAA
1 AAAATGATTATAGTTAGGCCATAAACAATGGAATGAAAA---GCATCGAGGTTTGCCAAATCGAA
*** * * *
16476 GACGATTCAAAACGGAACTAATGGGCCCCGAAAGGCACAAAATAACAAGTGTTCCAAATGAGCTA
63 GACGATTCAAAACATCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTA
* * * * * *
16541 AAAACATCACAGTGAAC-ATATCTCACTAAAATGAATATACTTAGGCCATAAACAATGGAAAGAA
128 AAAACTTCACACTGGACTA-ATCTCAC-CAAATGATTATAGTTAGGCCATAAACAATGGAAAGAA
* * ** *
16605 AAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAA
191 AAGCATCGAGGTTTGCCAAATCGAAGACAATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAA
16670 AATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAG
256 AATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAG
* *
16735 TTAGGCCATAAACAATGGAAAGAAAGGCATCGAAGGTTGCCAAATCGAAGACGATTCAAAATGTC
321 TTAGGCCATAAACAATGGAAAGAAAAGCATCGAAGGTTGCCAAATCGAAGACGATTCAAAACGTC
*
16800 ACTAATGGTCCCCGATAGGCCCAAAATAACAAGTTTTCCAAATGAGCTAAAAACTTCACAGTGGA
386 ACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGA
16865 CTAATCTCACC
451 CTAATCTCACC
* *
16876 AAAATGATTATAGTTAGGCCATACACAATGGAATGAAAAGCATTGAGGTTTGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAATGAAAAGCATCGAGGTTTGCCAAATCGAAGAC
16941 GATTCAAAACATCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
66 GATTCAAAACATCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
*
17006 ACTTCACACTGGACTAATCTCACCAAATGATTATAGTTTGGCCATAAACAATGGAAAG-AAAGAC
131 ACTTCACACTGGACTAATCTCACCAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAG-C
* * ** *
17070 ATCGAAGG-TTGCCAAATCGAAGACGATTCAAAAAGTCACTAATGGTCCCCGATAGGCCCAAAAT
195 ATCG-AGGTTTGCCAAATCGAAGACAATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAAT
*
17134 AACAAGTGTTCCAAATGAGCTAAAAACTTCACACTGGACTAATCTCACCAAAATGATTATAGTTA
259 AACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTA
*
17199 GGCCATAAACAATGGAAAGAAAAGCATTG-AGGTTTGCCAAATCGAAGACGATTCAAAACGTCAC
324 GGCCATAAACAATGGAAAGAAAAGCATCGAAGG-TTGCCAAATCGAAGACGATTCAAAACGTCAC
17263 TAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACT
388 TAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACT
17328 AATCTCACC
453 AATCTCACC
*
17337 AAAATGATTATAGTTAGGCCATAAACAATGGAATGAAAAGCATTGAGGTTTGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAATGAAAAGCATCGAGGTTTGCCAAATCGAAGAC
17402 GATTCAAAACATCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
66 GATTCAAAACATCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
* *
17467 ACTTCACACTGGACTAATCTCACCAAATGATTATAGTTTGGCCATAAACAATAGAAAGAAAAGCA
131 ACTTCACACTGGACTAATCTCACCAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCA
17532 TCGAAGGTTTG-CAAATCGAAGACAATTCAAAACGGAACTAATGGGCCCCGATAGAG--CAAAAT
196 TCG-AGGTTTGCCAAATCGAAGACAATTCAAAACGGAACTAATGGGCCCCGATAG-GCCCAAAAT
17594 AACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTA
259 AACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTA
17659 GGCCATAAACAATGGAAAG-AAAGACATCGAAGGTTGCCAAATCGAAGACGATTCAAAACGTCAC
324 GGCCATAAACAATGGAAAGAAAAG-CATCGAAGGTTGCCAAATCGAAGACGATTCAAAACGTCAC
17723 TAATGGTCCCCGATAGGCCCAAAAT-ACAA-TGTTCCAAATGAGCTAAAAACTTCACAGTGGACT
388 TAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACT
*
17786 TATCTCACC
453 AATCTCACC
* * *
17795 AAAATGATTATAGTTAGGCCATAAACAATTGAAAGAAAGGCATCGAACGGTTT-CCAAATCGAAG
1 AAAATGATTATAGTTAGGCCATAAACAATGGAATGAAAAGCATCG-A-GGTTTGCCAAATCGAAG
*
17859 ACGATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAA
64 ACGATTCAAAACATCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAA
* * *
17924 AAACTTCACAGTGGACAAATCTCACCAAAATGATTATAGTTAGGCCATAAAC-ATGGAAAAAAAA
129 AAACTTCACACTGGACTAATCTCACC-AAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAA
* * *
17988 GCATTGAGGTTTGCCAAATCGAAGACAATTCAAAACGGAACTAATGGGCCTCGATAGGCACAAAA
193 GCATCGAGGTTTGCCAAATCGAAGACAATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAA
* *
18053 TAACAAGTGTTCCAAATGAGCCAAAAACTTCACAGTGGACTAATCTCACCAAAAGGATTATAGGT
258 TAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATA-GT
* *
18118 T-GGCCACAAACAATGGAAAGTAAAGCAT
322 TAGGCCATAAACAATGGAAAGAAAAGCAT
18146 TGACAGTGGA
Statistics
Matches: 1200, Mismatches: 51, Indels: 41
0.93 0.04 0.03
Matches are distributed among these distances:
458 91 0.08
459 165 0.14
460 271 0.23
461 525 0.44
462 112 0.09
463 32 0.03
465 4 0.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (461 bp):
AAAATGATTATAGTTAGGCCATAAACAATGGAATGAAAAGCATCGAGGTTTGCCAAATCGAAGAC
GATTCAAAACATCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
ACTTCACACTGGACTAATCTCACCAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCA
TCGAGGTTTGCCAAATCGAAGACAATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAA
CAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGG
CCATAAACAATGGAAAGAAAAGCATCGAAGGTTGCCAAATCGAAGACGATTCAAAACGTCACTAA
TGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAAT
CTCACC
Found at i:18193 original size:64 final size:63
Alignment explanation
Indices: 18084--18205 Score: 192
Period size: 64 Copynumber: 1.9 Consensus size: 63
18074 CAAAAACTTC
*
18084 ACAGTGGACTAATCTCACCAAAAGGATTATAGGTTGGCCACAAACAATGGAAAGTAAAGCATTG
1 ACAGTGGACTAATCTCACCAAAAGGATTATAGGTTGGCAACAAACAATGGAAAG-AAAGCATTG
* *
18148 ACAGTGGACTAATCTCACCAAAATGATTATA-GTTAGGCAATAAACAATGGAAAGAAAG
1 ACAGTGGACTAATCTCACCAAAAGGATTATAGGTT-GGCAACAAACAATGGAAAGAAAG
18206 GCTTTGAAGG
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
63 7 0.13
64 47 0.87
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (63 bp):
ACAGTGGACTAATCTCACCAAAAGGATTATAGGTTGGCAACAAACAATGGAAAGAAAGCATTG
Done.