Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015842.1 Corchorus olitorius cultivar O-4 contig15875, 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: 45294
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:2229 original size:321 final size:320
Alignment explanation
Indices: 1731--2358 Score: 802
Period size: 321 Copynumber: 2.0 Consensus size: 320
1721 CCATGATGAT
*
1731 AAAAATGACCCGAAAGATTTTTCCTCAATTTTTGACAAAAATACTCATAATATATATATATATAA
1 AAAAATGACCCGAAAGATATTTCCTCAATTTTTGACAAAAATACTCATAATATATATATATATAA
* * * * * * * *
1796 TTCAATGCCAAAAAGATTGAAGGATTTTTCACGCTTTTAATATCGTTTTCCATTTTTTTCTGAAT
66 TTCAATGCAAAAAAAATTGAAGGACTTTTAACGCTTATAATATCGTTTTCCATTTCTTGCCGAA-
* *
1861 TTTAATTTCTAATTAAATCGATACAAGATTCAGATGCACATAAAAACAAATCGTTAAATCCAATG
130 TTTAATTTCTAATTAAATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATG
*
1926 TGGCTAACATTTTATTAGATGAATAAAGATATTTCAAGGAGTCTTGGTGC-CAAAAAATCATGCA
195 TGGCTAACATTTGATTAGATGAATAAAGATATTTCAAGGAGTCTT-G-GCACAAAAAATCATGCA
** ** ** *
1990 AAACAGAGTGGTGGCCTTGGAACGCGTTTTTAGCCAAAAATCGTGATGGTGGCTAAAATTTTGC
258 AAACAGAGCCG-AACCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTGGCTAAAATTTTGC
* * *
2054 AAAAATTGACCCGAAATATATTTCCTCAATTTTTGGCTAAAATACTCATAA-A-A-A-ATATATG
1 AAAAA-TGACCCGAAAGATATTTCCTCAATTTTTGACAAAAATACTCATAATATATATATATAT-
* * * *
2115 ATTTGATAT-CAAAAAAAATTGAAGGGCTTTTAACGCTTATAATATTGTTTTTCCTATTTCTTGC
64 AATTCA-ATGCAAAAAAAATTGAAGGACTTTTAACGCTTATAATATCG-TTTTCC-ATTTCTTGC
* * * * *
2179 CGAA-TTAATTTCTAATTAAATCGAAACGAGATTCATATGCTCGTAAAAACAAATCCTTAAATCT
126 CGAATTTAATTTCTAATTAAATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCC
* * *
2243 AATGTGGCTAAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCACAAAAAATCATG
191 AATGTGGCTAACATTTGATTAGATGAATAAAGATATTTCAAGGAGTCTTGGCACAAAAAATCATG
* *
2308 CAAAACTGAGCCGAACCCCGGAACGCGTTTTTAGCCGAAAACCGTGATGGT
256 CAAAACAGAGCCGAACCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGT
2359 TAGTACACGA
Statistics
Matches: 263, Mismatches: 36, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
319 34 0.13
320 29 0.11
321 134 0.51
322 9 0.03
323 16 0.06
324 41 0.16
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (320 bp):
AAAAATGACCCGAAAGATATTTCCTCAATTTTTGACAAAAATACTCATAATATATATATATATAA
TTCAATGCAAAAAAAATTGAAGGACTTTTAACGCTTATAATATCGTTTTCCATTTCTTGCCGAAT
TTAATTTCTAATTAAATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGT
GGCTAACATTTGATTAGATGAATAAAGATATTTCAAGGAGTCTTGGCACAAAAAATCATGCAAAA
CAGAGCCGAACCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTGGCTAAAATTTTGC
Found at i:3712 original size:340 final size:328
Alignment explanation
Indices: 2839--5549 Score: 1890
Period size: 340 Copynumber: 8.3 Consensus size: 328
2829 GAATGGAGAA
* * * *
2839 CTTTTCACGTTTTTAATATCGTTTTT-ATTATTTTTCTGAATTAATTTTTAATTAAATCGAAATA
1 CTTTTCACGCTTCTAATATCGTTTTTCA-TATTTTTCTGAATTAATTTCTAATTAAATCGAAACA
* * * * * * *
2903 AGATTCAGATGCTCATAAAAACAAATTCTTAAATCCAATTTTGCTAATATTTGATTAGATGAATA
65 AGATTCAGATGCTCGTAAAAAC-AATCCTTAAATGCAATGTGGCTGAGATTTGATTAGATGAATA
* ** * * * * * ** * *
2968 TGGATACCTCAAAGAATCTTGGCGCCAAAAATCAAGCAAAACTGAGCCGGGGTCCCGAAACGCGA
129 TAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAACT-AAACGAGG-CCCGGAACGCG-
* * * * *
3033 TTTTT-GC--CAAAGACC--G-T-A-TCA-AACGATTTCGGCTAGAATTTTACAAAAATTGACTC
191 TTTTTAGCAAAAAAAACCGTGATGATTAATAACGATTTCGGCTAAAATTTTGCAAAAATTGAC-C
* * * * *
3089 -GAAAGTTATTTT-CTCAACTTTTAG-CCACAACACTCATTAAAAT-TATATAATTCAACGCCAA
255 AGAAA--AATTTTCCTCAA-TTTTTGTCTAAAATACTCA-TAAAATATATATAATTCAACGCCAA
* *
3150 TAAGAATGAAGGG
316 AAAGATTGAAGGG
* *
3163 CTTTTCATGCTTCTAATATCGTTTTTCCTATTATTTTTC-GAATTAATTTCTGATTAAATCGAAA
1 CTTTTCACGCTTCTAATATCGTTTTT-C-A-TATTTTTCTGAATTAATTTCTAATTAAATCGAAA
* * ** * * * * *
3227 CATGATTCAGATGCTTGTTTTAAA-GATCCTTAAATCCAATGTGACTGATATTTGGTTAGATGAA
63 CAAGATTCAGATGCTCG-TAAAAACAATCCTTAAATGCAATGTGGCTGAGATTTGATTAGATGAA
* * * * * *
3291 TATAGATATTTCAAGGAGACT-TAGCGCCAAAAATCACGCAACACTATACCG-GGATCTCGGAAC
127 TATAGATATTTCAAGGAGTCTCGA-CGCCAAAAATCATGCAAAACTA-AACGAGG--CCCGGAAC
* * * * *
3354 GCGTTTTTAGCTAAAAAAAACCGTAATTTCGACTAACATAGTCGATTTCGGCTAATATTTTGTAA
188 GCGTTTTTAGC-AAAAAAAACCGTGA--T-GA-TTA-ATA-ACGATTTCGGCTAAAATTTTGCAA
** *
3419 AAATTGACCAGAAGTATTTATCCTCAATTTTTGTCTAAAATACTCATAAAATATATATATTTCAA
246 AAATTGACCAGAAAAATTT-TCCTCAATTTTTGTCTAAAATACTCATAAAATATATATAATTCAA
* * *
3484 CGACAAAAAGATTGCAGGA
310 CGCCAAAAAGATTGAAGGG
* * * *
3503 TTTTTCACGCTTTTAATATCGTTTTTCATATTTTTCTGAATTAATTTCAAATTAAATCAAAACAA
1 CTTTTCACGCTTCTAATATCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAA
* *
3568 GATTCAGATGCTCGTAAAAACACATCCTTAAATGTAATGTGGCTGAGATTTGATTAGATAAATAT
66 GATTCAGATGCTCGTAAAAACA-ATCCTTAAATGCAATGTGGCTGAGATTTGATTAGATGAATAT
* * * * *
3633 ATATTTTTCAAGGAGTCTCGACGCCAAAAATCATGCAATACTAAATCGAGGCCCGAAACACGTTT
130 AGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAACTAAA-CGAGGCCCGGAACGCGTTT
* * * *
3698 TTAGCTAAAAAAAAAAAACCGTGATGGTGT-AT-ATGATTTCGGCTAAAATTTTGTAAAAAATGA
194 TTAGC-----AAAAAAAACCGTGATGAT-TAATAACGATTTCGGCTAAAATTTTGCAAAAATTGA
* * **
3761 CCAGAAAAATTTTTCCTCAATTTTTGACTAAAATACTCATGAAAATATATATAATTTAATTCCAA
253 CCAGAAAAA-TTTTCCTCAATTTTTGTCTAAAATACTCAT-AAAATATATATAATTCAACGCCAA
*
3826 AAAGATTGGAGGAGGA
316 AAAGATT-GA--AGGG
* * * * *
3842 CTTTTCACGCTTTTCATATCGTTTTTCATATTTTATTTGAATTAATTTGTAATTAAATCGAAGCA
1 CTTTTCACGCTTCTAATATCGTTTTTCATATTTT-TCTGAATTAATTTCTAATTAAATCGAAACA
* * * * * * * *
3907 AGATACATATGCTCGTAAAAACAAATCATTAAATACAATGTGGATGAGAATTGTTTAGATTAATA
65 AGATTCAGATGCTCGTAAAAAC-AATCCTTAAATGCAATGTGGCTGAGATTTGATTAGATGAATA
* * * ** * * * *
3972 TGGATATCTCAAGGATTCTTAACGCCAAAAATCATGCAAAACT-GACTTGGGGCCGTGGAACGTG
129 TAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAACTAAAC--GAGGCC-CGGAACGCG
* *
4036 TTTTTAG--ACAAAAACCGTGATGATTATTACACGATTTCGGCTAAAATTTTGCAAAAAATTGAC
191 TTTTTAGCAAAAAAAACCGTGATGATTAATA-ACGATTTCGGCTAAAATTTTGC-AAAAATTGAC
* * * * * *
4099 CGAAAAAAATATTTCATCAGTTTTTGGCTAAAATACTCATAAAACAATATATAATTCATCGCCAA
254 C-AGAAAAAT-TTTCCTCAATTTTTGTCTAAAATACTCATAAAA-TATATATAATTCAACGCCAA
*
4164 AAATATTGAAGGG
316 AAAGATTGAAGGG
* * *
4177 TTTTTTACGCTTCTAAT-TC-TTTTTCCTACTTTTTCTGAATTAATTTCTAATTAAATCGAAACA
1 CTTTTCACGCTTCTAATATCGTTTTTCATA-TTTTTCTGAATTAATTTCTAATTAAATCGAAACA
* * * * *
4240 AGATTTAGATACTCGTCAAAAA-AATCCTTAATTCCAATGTGGCTGAGATTTGATTAGATAAATA
65 AGATTCAGATGCTCGT-AAAAACAATCCTTAAATGCAATGTGGCTGAGATTTGATTAGATGAATA
* * * * * * * *
4304 TAGATATTT-ACATGATTTTTGGCGCCAATAATCATGCAAAACTGACAC-AGGGCCTGGAACGCG
129 TAGATATTTCA-AGGAGTCTCGACGCCAAAAATCATGCAAAACT-AAACGA-GGCCCGGAACGCG
* * * * *
4367 GTTTTGGCCAAAAAAAAAAACTGTGATG-TT-A-CACGATTTCGGCTAATATTTTGCAAAAATTG
191 TTTTTAG-C---AAAAAAAACCGTGATGATTAATAACGATTTCGGCTAAAATTTTGCAAAAATTG
** * * * * * *
4429 ACCCA-AAATCTTTATCCTCAACTTATAG-CCACAATACTCATAAAAAATATATAATTCAGCGCC
252 A-CCAGAAAAATTT-TCCTCAA-TTTTTGTCTAAAATACTCATAAAATATATATAATTCAACGCC
4492 AAAAAGATTGAAGGG
314 AAAAAGATTGAAGGG
* * * * *
4507 CTTTTCATGCTTCTAATATTGTTTTTCTTATTTTTTTCGAATTAATTTCT-ACT-AA-CGAAACA
1 CTTTTCACGCTTCTAATATCGTTTTTCATATTTTTCT-GAATTAATTTCTAATTAAATCGAAACA
* ** *
4569 TGATTCAGATGCTTTTAAAAACAATGGC-T---TG--AT-T---TG-G--TT-A-T--ATGAATA
65 AGATTCAGATGCTCGTAAAAACAAT-CCTTAAATGCAATGTGGCTGAGATTTGATTAGATGAATA
* * * * * *
4617 TAGATATTTCAAGGAGTTTCGGCGCCAAAAATCATTCATAACTGAACTGAGGCCCGGAATGCGTT
129 TAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAACTAAAC-GAGGCCCGGAACGCGTT
* * ** * *
4682 TTTAGC--CAAAAACCGTGATGATTATTACACGATTTCAACTAAAATTTTTGCAAAAGTTGACCT
193 TTTAGCAAAAAAAACCGTGATGATTAATA-ACGATTTCGGCTAAAA-TTTTGCAAAAATTGACCA
** * * * * *
4745 GAAAGACATTTTTTTCAATTTTTATCCATAACACTCA-ATAAA-ATATATAATTCGACGCCAAAA
256 GAAA-A-ATTTTCCTCAATTTTTGTCTAAAATACTCATA-AAATATATATAATTCAACGCCAAAA
4808 AGATTGAAGGG
318 AGATTGAAGGG
* ** * *
4819 CTTTTCGCATTTTTAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTGAATCGAAACA
1 CTTTTCACGCTTCTAATATCGTTTTTCATA-TTTTTCTGAATTAATTTCTAATTAAATCGAAACA
* * *
4884 AGATTCAGATGCTCGT-AAAACAAATCCTTAAATGCAATGTTGCTAAGATTTTATTAGATGAATA
65 AGATTCAGATGCTCGTAAAAAC-AATCCTTAAATGCAATGTGGCTGAGATTTGATTAGATGAATA
* * ** * *
4948 TAGATATTTCAAGGAGTGTCTG-CGCAAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCG
129 TAGATATTTCAAGGAGTCTC-GACGCCAAAAATCATGCAAAACT-AAACGAGG-CCCGGAACGCG
* *
5012 TTTTTAGC--AAAAAA-C----TG-TT-A-AA--A--T----T---A---TGCAAAAAATGACCC
191 TTTTTAGCAAAAAAAACCGTGATGATTAATAACGATTTCGGCTAAAATTTTGCAAAAATTGACCA
** *
5053 GAAAAATTTTTCCTCAATTTTTGGATAAAATACTCATAAAATATTTATAATTATAATTTAACGCC
256 GAAAAA-TTTTCCTCAATTTTTGTCTAAAATACTCAT-AAA-A--TAT-A-TATAATTCAACGCC
* **
5118 AAAACA-ATTGGAGCA
314 AAAA-AGATTGAAGGG
* * * *
5133 CTTTTCATGCTGT-TAATATCATTTTTCATATTTTTCTCAATTAATTTCTAATTAAATTGAAACA
1 CTTTTCACGCT-TCTAATATCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACA
* * *
5197 AGATTCAGATGCTTGTAAAAACAAATTCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATA
65 AGATTCAGATGCTCGTAAAAAC-AATCCTTAAATGCAATGTGGCTGAGATTTGATTAGATGAATA
* * * * * ** * *** * *
5262 TGGATATCTCAAGGAGGCTTGGCGCCAAAAATCA-GACAAAACTGAGGCGGGGTCCTAAAATGCA
129 TAGATATTTCAAGGAGTCTCGACGCCAAAAATCATG-CAAAACT-AAACGAGG-CCCGGAACGCG
* * * * * *
5326 TTTTTATC--CAAAAACTGTGATGGTTATTACACGATTTCGGCTAAAATTTTGTAAAAATTGACC
191 TTTTTAGCAAAAAAAACCGTGATGATTAATA-ACGATTTCGGCTAAAATTTTGCAAAAATTGACC
* * ** * *
5389 CGAAAGATATTTCCTCAATTTTTGAGTAAAATACTCATAAAAAATATATAATTCAATGCCAAAAA
255 AGAAAAAT-TTTCCTCAATTTTTGTCTAAAATACTCATAAAATATATATAATTCAACGCCAAAAA
*
5454 GATTGAATGG
319 GATTGAAGGG
* * * * **
5464 CTTTTGAGGTTTCTAATATCGTTTTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCGAAACA
1 CTTTTCACGCTTCTAATATCGTTTTTCATA-TTTTTCTGAATTAATTTCTAATTAAATCGAAACA
* *
5529 AGATTTAGATGCTCGCAAAAA
65 AGATTCAGATGCTCGTAAAAA
5550 AAAAAATTTA
Statistics
Matches: 1901, Mismatches: 331, Indels: 302
0.75 0.13 0.12
Matches are distributed among these distances:
306 1 0.00
307 34 0.02
308 20 0.01
309 2 0.00
311 15 0.01
312 92 0.05
313 132 0.07
314 161 0.08
315 28 0.01
316 1 0.00
317 2 0.00
318 2 0.00
319 4 0.00
320 6 0.00
321 2 0.00
322 1 0.00
323 3 0.00
324 35 0.02
325 84 0.04
326 39 0.02
327 19 0.01
328 12 0.01
329 23 0.01
330 52 0.03
331 140 0.07
332 181 0.10
333 74 0.04
334 30 0.02
335 78 0.04
336 55 0.03
337 90 0.05
338 116 0.06
339 126 0.07
340 215 0.11
341 13 0.01
342 13 0.01
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (328 bp):
CTTTTCACGCTTCTAATATCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAA
GATTCAGATGCTCGTAAAAACAATCCTTAAATGCAATGTGGCTGAGATTTGATTAGATGAATATA
GATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAACTAAACGAGGCCCGGAACGCGTTTTT
AGCAAAAAAAACCGTGATGATTAATAACGATTTCGGCTAAAATTTTGCAAAAATTGACCAGAAAA
ATTTTCCTCAATTTTTGTCTAAAATACTCATAAAATATATATAATTCAACGCCAAAAAGATTGAA
GGG
Found at i:5966 original size:15 final size:16
Alignment explanation
Indices: 5948--5977 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5938 ATAAATAATA
5948 ATATTATAAT-TAAAT
1 ATATTATAATATAAAT
5963 ATATTATAATATAAA
1 ATATTATAATATAAA
5978 AATAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATTATAATATAAAT
Found at i:5977 original size:35 final size:34
Alignment explanation
Indices: 5937--6002 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
5927 TTTTCATGAC
* *
5937 TATAAATAATAA-TATTATAATTAAATATATTATAA
1 TATAAA-AATAATTATTAGAAGTAAAT-TATTATAA
5972 TATAAAAATAATTATTAGAAGTAAATTATTA
1 TATAAAAATAATTATTAGAAGTAAATTATTA
6003 ATTACAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 10 0.36
35 18 0.64
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (34 bp):
TATAAAAATAATTATTAGAAGTAAATTATTATAA
Found at i:6187 original size:14 final size:15
Alignment explanation
Indices: 6168--6197 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6158 AAATGACTAA
6168 AAAAATTATT-TATT
1 AAAAATTATTATATT
6182 AAAAATTATTATATT
1 AAAAATTATTATATT
6197 A
1 A
6198 TAATAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAAATTATTATATT
Found at i:6287 original size:13 final size:13
Alignment explanation
Indices: 6269--6296 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6259 GTATATATAG
6269 TAGTAAGATAAGA
1 TAGTAAGATAAGA
6282 TAGTAAGATAAGA
1 TAGTAAGATAAGA
6295 TA
1 TA
6297 TGATGAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.25
Consensus pattern (13 bp):
TAGTAAGATAAGA
Found at i:7839 original size:7 final size:6
Alignment explanation
Indices: 7803--7835 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
7793 TGATTCATTA
7803 TACTAG TACTAG TACTAG TACTAG TAACTAG TA
1 TACTAG TACTAG TACTAG TACTAG T-ACTAG TA
7836 ACTAATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (6 bp):
TACTAG
Found at i:11455 original size:24 final size:24
Alignment explanation
Indices: 11410--11461 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
11400 CCTAACTAAG
* * *
11410 GGAGGTGGTTTTGGTGCCGGAGGT
1 GGAGCTGGTTTTGGCGCCGGAGCT
**
11434 GGAGCTGGTTTTGGCGGTGGAGCT
1 GGAGCTGGTTTTGGCGCCGGAGCT
11458 GGAG
1 GGAG
11462 GCGGTGGTGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.10, C:0.10, G:0.54, T:0.27
Consensus pattern (24 bp):
GGAGCTGGTTTTGGCGCCGGAGCT
Found at i:11533 original size:18 final size:17
Alignment explanation
Indices: 11512--11567 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 17
11502 TGGTGGTGGA
11512 GGAGGTGGATTTGGAGGT
1 GGAGGTGG-TTTGGAGGT
*
11530 GGAGGTGGCTTTGGAGGC
1 GGAGGTGG-TTTGGAGGT
*
11548 GGTGGTGGTTTAGGAGGT
1 GGAGGTGGTTT-GGAGGT
11566 GG
1 GG
11568 GCATGGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 3 0.09
18 30 0.91
ACGTcount: A:0.12, C:0.04, G:0.57, T:0.27
Consensus pattern (17 bp):
GGAGGTGGTTTGGAGGT
Found at i:11628 original size:30 final size:30
Alignment explanation
Indices: 11594--11825 Score: 139
Period size: 30 Copynumber: 7.7 Consensus size: 30
11584 GGTGGAGGCT
* * * *
11594 TTGGTAAAGGAGGTGGATTTGGTGGTGGGA
1 TTGGAAAAGGTGGAGGATTTGGTGGTGGAA
* * *
11624 TTGGTAAGGGTGGAGGCA-TTGGTGGTGGAG
1 TTGGAAAAGGTGGAGG-ATTTGGTGGTGGAA
* * * *
11654 TAGGAAAAGGTGGCGGATATGGTGGAGGAA
1 TTGGAAAAGGTGGAGGATTTGGTGGTGGAA
* * * *
11684 TTGGTAAGGGTGGAGGCA-TAGGCGGTGGAA
1 TTGGAAAAGGTGGAGG-ATTTGGTGGTGGAA
* * * *
11714 TAGGAAAAGGTGGTGG-TTATGGAGGTGGTA
1 TTGGAAAAGGTGGAGGATT-TGGTGGTGGAA
* *
11744 TTGGCAAAGGAGGAGG-TATTGGTGGTGGAA
1 TTGGAAAAGGTGGAGGAT-TTGGTGGTGGAA
* * * *
11774 TAGGAAAAGGTGGTGGATATGGTGGTGGCA
1 TTGGAAAAGGTGGAGGATTTGGTGGTGGAA
* * * *
11804 TCGGAAAGGGTGGTGGAATTGG
1 TTGGAAAAGGTGGAGGATTTGG
11826 GAAAGGAGGG
Statistics
Matches: 152, Mismatches: 43, Indels: 14
0.73 0.21 0.07
Matches are distributed among these distances:
29 2 0.01
30 146 0.96
31 4 0.03
ACGTcount: A:0.25, C:0.03, G:0.49, T:0.24
Consensus pattern (30 bp):
TTGGAAAAGGTGGAGGATTTGGTGGTGGAA
Found at i:11663 original size:60 final size:60
Alignment explanation
Indices: 11594--12209 Score: 447
Period size: 60 Copynumber: 10.4 Consensus size: 60
11584 GGTGGAGGCT
* * * * *
11594 TTGGTAAAGGAGGTGGATTTGGTGGTGGGATTGGTAAGGGTGGAGGCATTGGTGGTGGAG
1 TTGGAAAAGGTGGTGGATTTGGTGGTGGAATTGGCAAGGGTGGAGGCATTGGTGGTGGAA
* * * * * * *
11654 TAGGAAAAGGTGGCGGATATGGTGGAGGAATTGGTAAGGGTGGAGGCATAGGCGGTGGAA
1 TTGGAAAAGGTGGTGGATTTGGTGGTGGAATTGGCAAGGGTGGAGGCATTGGTGGTGGAA
* * * * * *
11714 TAGGAAAAGGTGGTGG-TTATGGAGGTGGTATTGGCAAAGGAGGAGGTATTGGTGGTGGAA
1 TTGGAAAAGGTGGTGGATT-TGGTGGTGGAATTGGCAAGGGTGGAGGCATTGGTGGTGGAA
* * * *
11774 TAGGAAAAGGTGGTGGATATGGTGGTGGCATCGG-AA------A-G----GGTGGTGGAA
1 TTGGAAAAGGTGGTGGATTTGGTGGTGGAATTGGCAAGGGTGGAGGCATTGGTGGTGGAA
* * * * * * * *
11822 TTGGGAAAGGAGGGGGATTTGGTGGTGGAATAGGCAAGGGAGGTGG-ATATGGAGGTGGCA
1 TTGGAAAAGGTGGTGGATTTGGTGGTGGAATTGGCAAGGGTGGAGGCAT-TGGTGGTGGAA
* * * * * * *
11882 TTGGAAAAGGAGGAGGCA-TCGGTGGTGGAATTGGAAAGGGTGGTGG-ATATGGAGGTGGCA
1 TTGGAAAAGGTGGTGG-ATTTGGTGGTGGAATTGGCAAGGGTGGAGGCAT-TGGTGGTGGAA
* * * *
11942 TTGGAAAGGGTGGTGGAATTGGTGGCGGAATTGGCAAAGGTGGAGGCATTGGTGGTGGAA
1 TTGGAAAAGGTGGTGGATTTGGTGGTGGAATTGGCAAGGGTGGAGGCATTGGTGGTGGAA
* ** * * * * * * *
12002 TTGGAAAGGGTGGTGGATACGGAGGTGGTATTGGAAAGGGTGGTGG-ATACGGAGGTGGCA
1 TTGGAAAAGGTGGTGGATTTGGTGGTGGAATTGGCAAGGGTGGAGGCAT-TGGTGGTGGAA
* * * *
12062 TTGGAAAGGGTGGTGGAATTGGTGGCGGAATTGGCAAAGGTGGAGGCATTGGTGGTGGAA
1 TTGGAAAAGGTGGTGGATTTGGTGGTGGAATTGGCAAGGGTGGAGGCATTGGTGGTGGAA
* ** * * * *
12122 TTGGAAAAGGTGGAGGCATTGGTGGTGGGGGTGGTTTTGGTAAAGGTGGTGGCATTGGTGGTGGG
1 TTGGAAAAGGTGGTGG-ATT--TGGT---GGTGGAATTGGCAAGGGTGGAGGCATTGGTGGTGGA
12187 A
60 A
*
12188 TTGGAAAAGGTGGTGGAGTTGG
1 TTGGAAAAGGTGGTGGATTTGG
12210 CGGCGGTGCT
Statistics
Matches: 445, Mismatches: 86, Indels: 47
0.77 0.15 0.08
Matches are distributed among these distances:
48 37 0.08
49 2 0.00
52 1 0.00
53 1 0.00
56 1 0.00
59 6 0.01
60 334 0.75
61 8 0.02
63 7 0.02
65 2 0.00
66 46 0.10
ACGTcount: A:0.24, C:0.04, G:0.49, T:0.23
Consensus pattern (60 bp):
TTGGAAAAGGTGGTGGATTTGGTGGTGGAATTGGCAAGGGTGGAGGCATTGGTGGTGGAA
Found at i:11816 original size:138 final size:138
Alignment explanation
Indices: 11674--11964 Score: 395
Period size: 138 Copynumber: 2.1 Consensus size: 138
11664 TGGCGGATAT
* * * * *
11674 GGTGGAGGAATTGGTAAGGGTGGAGGCA-TAGGCGGTGGAATAGGAAAAGGTGGTGGTTATGGAG
1 GGTGGTGGAATTGGTAAAGGAGG-GGCATTAGGCGGTGGAATAGGAAAAGGAGGTGGATATGGAG
* * * * *
11738 GTGGTATTGGCAAAGGAGGAGGTATTGGTGGTGGAATAGGAAAAGGTGGTGGATATGGTGGTGGC
65 GTGGCATTGGAAAAGGAGGAGGCATCGGTGGTGGAATAGGAAAAGGTGGTGGATATGGAGGTGGC
11803 ATCGGAAAG
130 ATCGGAAAG
* * * * * *
11812 GGTGGTGGAATTGGGAAAGGAGGGGGATTTGGTGGTGGAATAGGCAAGGGAGGTGGATATGGAGG
1 GGTGGTGGAATTGGTAAAGGAGGGGCATTAGGCGGTGGAATAGGAAAAGGAGGTGGATATGGAGG
* *
11877 TGGCATTGGAAAAGGAGGAGGCATCGGTGGTGGAATTGGAAAGGGTGGTGGATATGGAGGTGGCA
66 TGGCATTGGAAAAGGAGGAGGCATCGGTGGTGGAATAGGAAAAGGTGGTGGATATGGAGGTGGCA
*
11942 TTGGAAAG
131 TCGGAAAG
11950 GGTGGTGGAATTGGT
1 GGTGGTGGAATTGGT
11965 GGCGGAATTG
Statistics
Matches: 132, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
137 3 0.02
138 129 0.98
ACGTcount: A:0.26, C:0.03, G:0.49, T:0.22
Consensus pattern (138 bp):
GGTGGTGGAATTGGTAAAGGAGGGGCATTAGGCGGTGGAATAGGAAAAGGAGGTGGATATGGAGG
TGGCATTGGAAAAGGAGGAGGCATCGGTGGTGGAATAGGAAAAGGTGGTGGATATGGAGGTGGCA
TCGGAAAG
Found at i:11818 original size:48 final size:48
Alignment explanation
Indices: 11764--11960 Score: 135
Period size: 48 Copynumber: 4.2 Consensus size: 48
11754 AGGAGGTATT
*
11764 GGTGGTGGAATAGGAAAAGGTGGTGGATATGGTGGTGGCATCGGAAAG
1 GGTGGTGGAATAGGAAAAGGTGGTGGATATGGAGGTGGCATCGGAAAG
* * * * * * * * *
11812 GGTGGTGGAATTGGGAAAGGAGGGGGATTTGGTGGTGGAATAGGCAAG
1 GGTGGTGGAATAGGAAAAGGTGGTGGATATGGAGGTGGCATCGGAAAG
* * * *
11860 GGAGGTGG-ATATGG---AGGTGGCATTGGAAAAGGAGGAGGCATC------
1 GGTGGTGGAATA-GGAAAAGGTGG---TGGATATGGAGGTGGCATCGGAAAG
* * *
11902 GGTGGTGGAATTGGAAAGGGTGGTGGATATGGAGGTGGCATTGGAAAG
1 GGTGGTGGAATAGGAAAAGGTGGTGGATATGGAGGTGGCATCGGAAAG
11950 GGTGGTGGAAT
1 GGTGGTGGAAT
11961 TGGTGGCGGA
Statistics
Matches: 109, Mismatches: 26, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
42 24 0.22
43 2 0.02
45 10 0.09
47 2 0.02
48 71 0.65
ACGTcount: A:0.26, C:0.04, G:0.50, T:0.21
Consensus pattern (48 bp):
GGTGGTGGAATAGGAAAAGGTGGTGGATATGGAGGTGGCATCGGAAAG
Found at i:11831 original size:78 final size:78
Alignment explanation
Indices: 11737--11888 Score: 216
Period size: 78 Copynumber: 1.9 Consensus size: 78
11727 TGGTTATGGA
* * * *
11737 GGTGGTATTGGCAAAGGAGGAGG-TATTGGTGGTGGAATAGGAAAAGGTGGTGGATATGGTGGTG
1 GGTGGAATTGGCAAAGGAGGGGGAT-TTGGTGGTGGAATAGGAAAAGGAGGTGGATATGGAGGTG
11801 GCATCGGAAAGGGT
65 GCATCGGAAAGGGT
* * *
11815 GGTGGAATTGGGAAAGGAGGGGGATTTGGTGGTGGAATAGGCAAGGGAGGTGGATATGGAGGTGG
1 GGTGGAATTGGCAAAGGAGGGGGATTTGGTGGTGGAATAGGAAAAGGAGGTGGATATGGAGGTGG
*
11880 CATTGGAAA
66 CATCGGAAA
11889 AGGAGGAGGC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
78 64 0.98
79 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.49, T:0.22
Consensus pattern (78 bp):
GGTGGAATTGGCAAAGGAGGGGGATTTGGTGGTGGAATAGGAAAAGGAGGTGGATATGGAGGTGG
CATCGGAAAGGGT
Found at i:11925 original size:18 final size:18
Alignment explanation
Indices: 11902--11963 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
11892 AGGAGGCATC
11902 GGTGGTGGAATTGGAAAG
1 GGTGGTGGAATTGGAAAG
11920 GGTGGTGG-ATATGG--A-
1 GGTGGTGGAAT-TGGAAAG
*
11935 ---GGTGGCATTGGAAAG
1 GGTGGTGGAATTGGAAAG
11950 GGTGGTGGAATTGG
1 GGTGGTGGAATTGG
11964 TGGCGGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 16
0.67 0.02 0.31
Matches are distributed among these distances:
12 8 0.23
13 2 0.06
14 1 0.03
16 1 0.03
17 2 0.06
18 21 0.60
ACGTcount: A:0.23, C:0.02, G:0.52, T:0.24
Consensus pattern (18 bp):
GGTGGTGGAATTGGAAAG
Found at i:12179 original size:18 final size:18
Alignment explanation
Indices: 12112--12180 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
12102 TGGAGGCATT
* *
12112 GGTGGTGGAATTGGAAAA
1 GGTGGTGGCATTGGTAAA
* ***
12130 GGTGGAGGCATTGGTGGT
1 GGTGGTGGCATTGGTAAA
* **
12148 GGGGGTGGTTTTGGTAAA
1 GGTGGTGGCATTGGTAAA
12166 GGTGGTGGCATTGGT
1 GGTGGTGGCATTGGT
12181 GGTGGGATTG
Statistics
Matches: 35, Mismatches: 16, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.17, C:0.03, G:0.51, T:0.29
Consensus pattern (18 bp):
GGTGGTGGCATTGGTAAA
Found at i:12197 original size:30 final size:30
Alignment explanation
Indices: 11812--12203 Score: 308
Period size: 30 Copynumber: 12.9 Consensus size: 30
11802 CATCGGAAAG
* * *
11812 GGTGGTGGAATTGGGAAAGGAGG-GGGATTT
1 GGTGGTGGAATTGGAAAAGGTGGTGGCA-TT
* * * *
11842 GGTGGTGGAATAGGCAAGGGAGGTGG-ATAT
1 GGTGGTGGAATTGGAAAAGGTGGTGGCAT-T
* * * * *
11872 GGAGGTGGCATTGGAAAAGGAGGAGGCATC
1 GGTGGTGGAATTGGAAAAGGTGGTGGCATT
*
11902 GGTGGTGGAATTGGAAAGGGTGGTGG-ATAT
1 GGTGGTGGAATTGGAAAAGGTGGTGGCAT-T
* * * *
11932 GGAGGTGGCATTGGAAAGGGTGGTGGAATT
1 GGTGGTGGAATTGGAAAAGGTGGTGGCATT
* * *
11962 GGTGGCGGAATTGGCAAAGGTGGAGGCATT
1 GGTGGTGGAATTGGAAAAGGTGGTGGCATT
* *
11992 GGTGGTGGAATTGGAAAGGGTGGTGG-ATAC
1 GGTGGTGGAATTGGAAAAGGTGGTGGCAT-T
* * * *
12022 GGAGGTGGTATTGGAAAGGGTGGTGG-ATAC
1 GGTGGTGGAATTGGAAAAGGTGGTGGCAT-T
* * * *
12052 GGAGGTGGCATTGGAAAGGGTGGTGGAATT
1 GGTGGTGGAATTGGAAAAGGTGGTGGCATT
* * *
12082 GGTGGCGGAATTGGCAAAGGTGGAGGCATT
1 GGTGGTGGAATTGGAAAAGGTGGTGGCATT
*
12112 GGTGGTGGAATTGGAAAAGGTGGAGGCATTGGT
1 GGTGGTGGAATTGGAAAAGGTGGTGGCA-T--T
** *
12145 GGTGGGGGTGGTTTTGGTAAAGGTGGTGGCATT
1 GGT---GGTGGAATTGGAAAAGGTGGTGGCATT
*
12178 GGTGGTGGGATTGGAAAAGGTGGTGG
1 GGTGGTGGAATTGGAAAAGGTGGTGG
12204 AGTTGGCGGC
Statistics
Matches: 299, Mismatches: 50, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
29 5 0.02
30 255 0.85
31 9 0.03
33 8 0.03
35 1 0.00
36 21 0.07
ACGTcount: A:0.23, C:0.04, G:0.50, T:0.23
Consensus pattern (30 bp):
GGTGGTGGAATTGGAAAAGGTGGTGGCATT
Found at i:12217 original size:18 final size:19
Alignment explanation
Indices: 12195--12248 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
12185 GGATTGGAAA
12195 AGGTGGTGGAGTTGGCGGC
1 AGGTGGTGGAGTTGGCGGC
* * *
12214 -GGTGCTGGAGGTGG-TGC
1 AGGTGGTGGAGTTGGCGGC
*
12231 AGGTGGTGGATTTGGCGG
1 AGGTGGTGGAGTTGGCGG
12249 TGGCTCCGGA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
17 2 0.08
18 23 0.88
19 1 0.04
ACGTcount: A:0.09, C:0.09, G:0.57, T:0.24
Consensus pattern (19 bp):
AGGTGGTGGAGTTGGCGGC
Found at i:12235 original size:66 final size:66
Alignment explanation
Indices: 12097--12239 Score: 162
Period size: 66 Copynumber: 2.2 Consensus size: 66
12087 CGGAATTGGC
* * * * ***
12097 AAAGGTGGAGGCATTGGTGGTGGAATTGGAAAAGGTGGAGGCATTGGTGGTGGGGGTGGTTTTGG
1 AAAGGTGGTGGCATTGGTGGTGGAATTGGAAAAGGTGGAGGCATTGGCGGCGGGGCTGGAGGTGG
12162 T
66 T
* * *
12163 AAAGGTGGTGGCATTGGTGGTGGGATTGGAAAAGGTGGTGG-AGTTGGCGGCGGTGCTGGAGGTG
1 AAAGGTGGTGGCATTGGTGGTGGAATTGGAAAAGGTGGAGGCA-TTGGCGGCGGGGCTGGAGGTG
12227 GT
65 GT
**
12229 GCAGGTGGTGG
1 AAAGGTGGTGG
12240 ATTTGGCGGT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 1 0.02
66 63 0.98
ACGTcount: A:0.17, C:0.05, G:0.52, T:0.25
Consensus pattern (66 bp):
AAAGGTGGTGGCATTGGTGGTGGAATTGGAAAAGGTGGAGGCATTGGCGGCGGGGCTGGAGGTGG
T
Found at i:12260 original size:36 final size:36
Alignment explanation
Indices: 12195--12278 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
12185 GGATTGGAAA
* * *
12195 AGGTGGTGGAGTTGGCGGCGGTGCTGGAGGTGGTGC
1 AGGTGGTGGATTTGGCGGCGGTGCCGGAGGAGGTGC
*
12231 AGGTGGTGGATTTGGCGGTGGCT-CCGGAGGAGGTGC
1 AGGTGGTGGATTTGGCGGCGG-TGCCGGAGGAGGTGC
* *
12267 TGGAGGTGGATT
1 AGGTGGTGGATT
12279 CGGCAAAGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 40 0.98
37 1 0.02
ACGTcount: A:0.11, C:0.11, G:0.55, T:0.24
Consensus pattern (36 bp):
AGGTGGTGGATTTGGCGGCGGTGCCGGAGGAGGTGC
Found at i:12346 original size:18 final size:18
Alignment explanation
Indices: 12325--12359 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12315 TGGAAGTGGC
12325 GGTGGCGGTGGTTTTGGT
1 GGTGGCGGTGGTTTTGGT
*
12343 GGTGGTGGTGGTTTTGG
1 GGTGGCGGTGGTTTTGG
12360 AGGAGGAGCA
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:0.00, C:0.03, G:0.57, T:0.40
Consensus pattern (18 bp):
GGTGGCGGTGGTTTTGGT
Found at i:12454 original size:18 final size:18
Alignment explanation
Indices: 12427--12461 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12417 AGGTGCAGGT
12427 GGTGGATTTGGAGGTGGA
1 GGTGGATTTGGAGGTGGA
*
12445 GGTGGTTTTGGAGGTGG
1 GGTGGATTTGGAGGTGG
12462 CGGAGGTGGT
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:0.11, C:0.00, G:0.57, T:0.31
Consensus pattern (18 bp):
GGTGGATTTGGAGGTGGA
Found at i:12458 original size:42 final size:42
Alignment explanation
Indices: 12357--12446 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 42
12347 GTGGTGGTTT
* *
12357 TGGAGGAGGAGCAGGTGGAGGTGCAGGTGGTGGATTCGGAGG
1 TGGAGGAGGAGCAGGAGGAGGTGCAGGTGGTGGATTTGGAGG
12399 TGGAGGAGGAGCAGGAGGAGGTGCAGGTGGTGGATTTGGAGG
1 TGGAGGAGGAGCAGGAGGAGGTGCAGGTGGTGGATTTGGAGG
12441 TGGAGG
1 TGGAGG
12447 TGGTTTTGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.20, C:0.06, G:0.58, T:0.17
Consensus pattern (42 bp):
TGGAGGAGGAGCAGGAGGAGGTGCAGGTGGTGGATTTGGAGG
Found at i:15689 original size:16 final size:16
Alignment explanation
Indices: 15668--15699 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15658 TTTTTTTGTT
15668 CTTGAGTACAAGGAAA
1 CTTGAGTACAAGGAAA
*
15684 CTTGAGTACAGGGAAA
1 CTTGAGTACAAGGAAA
15700 TATATATGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.19
Consensus pattern (16 bp):
CTTGAGTACAAGGAAA
Found at i:17166 original size:20 final size:20
Alignment explanation
Indices: 17141--17178 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17131 AATATTATCT
17141 ATAATTCAAATCACTTAACC
1 ATAATTCAAATCACTTAACC
* *
17161 ATAATTCGATTCACTTAA
1 ATAATTCAAATCACTTAA
17179 TTTAAACTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (20 bp):
ATAATTCAAATCACTTAACC
Found at i:34109 original size:52 final size:52
Alignment explanation
Indices: 34047--34153 Score: 205
Period size: 52 Copynumber: 2.1 Consensus size: 52
34037 TATACCCAAC
*
34047 TATCGATGTTGTATCATGGCACAATCGTGTTTTTCATTTATCAATAGTTCTA
1 TATCGATGTTGTATCATGGCACAATCGTGTTTTTCATCTATCAATAGTTCTA
34099 TATCGATGTTGTATCATGGCACAATCGTGTTTTTCATCTATCAATAGTTCTA
1 TATCGATGTTGTATCATGGCACAATCGTGTTTTTCATCTATCAATAGTTCTA
34151 TAT
1 TAT
34154 TTGTTCTGAC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (52 bp):
TATCGATGTTGTATCATGGCACAATCGTGTTTTTCATCTATCAATAGTTCTA
Found at i:37045 original size:69 final size:69
Alignment explanation
Indices: 36934--37071 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
36924 CTCTTCCTCC
**
36934 TTTTCTGCTAGGCTCAACACAGCCGCTACTGTTTTTGATGGGAAATGAAGAGGGAAGCTAGGGTT
1 TTTTCTGCTAGGCTCAACACAGCCGCTACTACTTTTGATGGGAAATGAAGAGGGAAGCTAGGGTT
36999 TTTG
66 TTTG
* *
37003 TTTTCTGCTAGGCTCAACACGGCCGCTGCTACTTTTGATGGGAAATGAAGAGGGAAGCTAGGGTT
1 TTTTCTGCTAGGCTCAACACAGCCGCTACTACTTTTGATGGGAAATGAAGAGGGAAGCTAGGGTT
37068 TTTG
66 TTTG
37072 CGGGCTAGGT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (69 bp):
TTTTCTGCTAGGCTCAACACAGCCGCTACTACTTTTGATGGGAAATGAAGAGGGAAGCTAGGGTT
TTTG
Done.