Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01014500.1 Corchorus capsularis cultivar CVL-1 contig14521, 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: 9989
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Found at i:1812 original size:318 final size:321
Alignment explanation
Indices: 1--3577 Score: 4439
Period size: 325 Copynumber: 11.1 Consensus size: 321
* * *
1 TGGCATTGAAATATATATTTTCTT-TGTGTATTTTGGTAAAAAATTGAGAAAAAAATTTTCGGGT
1 TGGCATTGAATTATATATTTT-TTCTGTGTATTGTGGCAAAAAATTGAGAAAAAAA-TTTCGGGT
* * * * *
65 CAGTTTTTAGCCTAAATTGTATACTAACAATCACTGTTTTTGGCTAAAAACGCGTTCCGGAGCAC
64 CAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCC
* *
130 CGGCTCAATTTTGCATGA-TTTTGGTACAAAGACTCCTT-TAATATCTATATTTATCAAACCAAA
129 CGGCTCAATTTTGCATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACC-AA
193 ATCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATT
193 ATCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATT
* *
258 AGAAATTAATTCGGTAAAAAAATGGGAAAACGATATTAGAAGCGTGAAAAGTCCTTCAATATTTT
258 AGAAATTAATTCGG-AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCAATATTTT
* * *
323 TGACATTGAATTATATAATTTTTCCTGTGTTTTGTGGCAAAAAATTGAGAAAAAAAAAATTTCGG
1 TGGCATTGAATTATAT-ATTTTTTCTGTGTATTGTGGCAAAAAATTGAG---AAAAAAATTTCGG
* * * * * * *
388 GTCAGTTTTTAGCCAAAATTGTGTACTAACCGTTACAGTTTTTGGCTAAAAACACGTTCTGGAGT
62 GTCAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGC
* * *
453 CCCAGCTCAGTTTTGCTTGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCA
127 CCCGGCTCAATTTTGCATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACC-
*
518 AAATCTCAGCAATATTGAATATAAGGATTTG-TTTTTCGAGCATCTCAATCTTGTTTCGATTTAA
191 AAATCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAA
* * *
582 TTAGAAATTAATTCGGAAAAAAAATCGAAAAACGCTATTAGAAGCGTGTGAAAGGTCCATCAATA
256 TTAGAAATTAATTCGG-AAAAAAATGGAAAAACGATATTAGAAGC--GTGAAAAGTCCATCAATA
*
647 TTTC
318 TTTT
* * * *
651 TGGCATTGAATTATATTATATTTT-TGTGTTTTGTGGCAAAAATTTGAGGAAAAAAAAATTCGGG
1 TGGCATTGAATTATA-TATTTTTTCTGTGTATTGTGGCAAAAAATTGA-G-AAAAAAATTTCGGG
* * * *
715 TCAATTTTTAGCTGAAATTGTATACTAACTATCACGG-TTTTGGCTAAAAACGCGTTCCGGAGCC
63 TCAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCC
** * *
779 CCAACTCAATTTTCCATTATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAA
128 CCGGCTCAATTTTGCATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACC--
* * *
844 TAATTATCTCATCATTATTGGATATAAGGATTTG-TTTTT----CATCTCAATCATGTTTCGATT
191 -AA--ATCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATT
* * * * * *
904 TAATTAGAAATTAA-TCAGGAAAAAAAATTAGAAAAACGATATTAGAATCGTAAAAATTTCGTCA
253 TAATTAGAAATTAATTC-GG-AAAAAAA-TGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCA
968 ATATTTT
315 ATATTTT
* * ** * *
975 TGGCATTGAATTATATATCTTTTCTGTTTGCTGGGGCAAAAAATTGAGAAAAAAAATTTTCGAGT
1 TGGCATTGAATTATATATTTTTTCTGTGTATTGTGGCAAAAAATTGAG-AAAAAAA-TTTCGGGT
* * * * *
1040 CAGTTTTTAGCCGAAATTTTGTACTAACCATCATGGTTTTTGGCTAAAACCGCGTTCCGGAGTCA
64 CAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCC
* * * * **
1105 CGGCTGAATTTTGCATGATTTTTGGCACAAAGACTCCTTAAAATATCTATATTCATCGAGGCAAA
129 CGGCTCAATTTTGCATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAA
1170 TCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTA
194 TCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTA
** *
1235 GAAATTAATTCGGTGAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCTTCAATATTTT
259 GAAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCAATATTTT
* * *
1298 TGGCATTGAATTATATATTTTTTCTGTTTGTTGTGGCAAAAAATTGAGAAAAAACTTATCGGGTC
1 TGGCATTGAATTATATATTTTTTCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATT-TCGGGTC
* *
1363 AGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGTCCC
65 AGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCC
* *
1428 GTCTCAATTTTGTATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAAT
130 GGCTCAATTTTGCATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAAT
*
1493 CTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCAATTTAATTAG
195 CTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAG
* *
1558 AAATTAATTCGG-AAAAAATGGAAAAACGATATTAGAAGCTTGAAAAGTCCATCAATATTTC
260 AAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCAATATTTT
* * * *
1619 TGGCATTGAATTATATA-CTTTT-TGTGTATTGTGACAAAAAATTGAGAAAAAAATTTTGGGTAA
1 TGGCATTGAATTATATATTTTTTCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTCGGGTCA
* * *
1682 GTTTTTAGCCGAAATTGTGTACAAACCATCACGGGTTTTGGCTAAAAATGCGTTCCGGAGCCCCG
66 GTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCG
* * * * **
1747 GCTGAATTTTGCATGAGTTTTT-GCACAAAGACTCCTTGAAATAACTATATTCATCGAGGCAAAT
131 GCTCAATTTTGCATGA-TTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAAT
* *
1811 CTCAACAATATTGGATATAATGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAG
195 CTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAG
* * *
1876 AAACTAATTCGG-CAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTTCGA-CAATATTTT
260 AAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAG-TCCATCAATATTTT
* * *
1937 TGGCATTGAATTATATATATTTTCTGTTTATTGTGGCAAAAAATTGAGAAAAAACTTATCGGGTC
1 TGGCATTGAATTATATATTTTTTCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATT-TCGGGTC
* * * *
2002 AGTTTTTAGCCGAAATTATGTACTAACCATCACGGTTTTTGGGTAAAAACGCGTTCCAGAGTCCC
65 AGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCC
*
2067 GGCTCAATTTTGTATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAAT
130 GGCTCAATTTTGCATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAAT
*
2132 CTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCAATTTAATTAG
195 CTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAG
* *
2197 AAATTAATTCGG--AAAAATGGAAAAACGATATTAGAAGCTTGAAAAGTCCATCAATATTTC
260 AAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCAATATTTT
* *
2257 TGGCATTGAATTATATACTTTTT-TGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTCAGGTCA
1 TGGCATTGAATTATATATTTTTTCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTCGGGTCA
* *
2321 GTTTTTAGCCGAAATTGTGTACAAACCATCACGGTTTTTTGCTAAAAACGCGTTCCGGAGCCCCG
66 GTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCG
* * * * *
2386 GCTGAATTTTGCATGAGTTTTT-GCACAAAAACTCCTTGAAATAAT-TATATTCATCGAAGCAAA
131 GCTCAATTTTGCATGA-TTTTTGGTACAAAGACTCCTTGAAAT-ATCTATATTCATCAAACCAAA
* * *
2449 TCTCAGCAATATTGGATATAATGATTTGGTTTTTCGAGCATCTTAATCTTGTTTCGATTTAATTA
194 TCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTA
* *
2514 GAAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTTCGTCAATATTTT
259 GAAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCAATATTTT
* * *
2577 TGGCATTGAATTATATATTTTTTCTGTTTGTTGTGGCAAAAAAATTGAGAAAAAACTTATCGGGT
1 TGGCATTGAATTATATATTTTTTCTGTGTATTGTGGC-AAAAAATTGAGAAAAAAATT-TCGGGT
*
2642 CAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGACC
64 CAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCC
* * * *
2707 CGGCTCAATTTTGTATGATTTTTGGTACAGAGATTCATTGAAATATCTATATTCATCAAACCAAA
129 CGGCTCAATTTTGCATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAA
* * * *
2772 TCTCAGCAATATTGGGTATAAGGATTTGTTTTTTCGAGTATCTCATTCTTGTTTCAATTTAATTA
194 TCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTA
* * * * * * * *
2837 GAAATTAATTCGAAAAAAAAAAAAGGAAAAACGATATTAGAAGCGTGTAAAGCCCGTTAGTCTTT
259 GAAATTAATTCG---GAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCAATATTT
2902 T
321 T
* * * * **
2903 TGGCGTTGAATTATATATTTTTTCTGTGAATTGTGGTAAAAAAATGAGAAAAAATATTTCAAGTC
1 TGGCATTGAATTATATATTTTTTCTGTGTATTGTGGCAAAAAATTGAGAAAAAA-ATTTCGGGTC
* * * * * * *
2968 AGCTTTTAGTCAAAATCGTGTACTAACCATCACTGTTTTTGGCTAAAAACACGTTCCGGAGCTCC
65 AGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCC
* * ** * * * * *
3033 GTCTCAATTTTACATGATTTTTGGCGCAAAGACTCCTTAAAACATCTTTATTCATCGAACTAAAT
130 GGCTCAATTTTGCATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAAT
* * * * *
3098 ATCAG-ACACATTGGATATAAGGATTTGTTTTTAT-GAGTATCTGAATCTTGTTTCGATTTTATT
195 CTCAGCA-ATATTGGATATAAGGATTTGTTTTT-TCGAGCATCTCAATCTTGTTTCGATTTAATT
* * * * * *
3161 AGAAATTAATTCGAAGAAAAAAATGAAAAAATGATATTAAAAGCGTGAAAAGCCCGTTAATATTT
258 AGAAATTAATTCG--GAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCAATATTT
3226 T
321 T
** * * * *
3227 TGGTGTTAAATTATATA-TTTTTCTGAGTATTGTGGTC-AAAAATTGAAAAAAAAAACTTTTGGG
1 TGGCATTGAATTATATATTTTTTCTGTGTATTGTGG-CAAAAAATTG-AGAAAAAAA-TTTCGGG
* ** * * * * **
3290 TCAGTTTTTAGCCGAAATTGTGTAATAATTATAACGGTTTTTTGACTAAAAACACATT-TTGAGC
63 TCAGTTTTTAGCCGAAATTGTGTACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTCCGGAGC
* ** * ** ** * * * * *
3354 CACGGCTCTGTTTTGCATGGTTTTTGGCGCCGACACTGCTTGAAATATCTTTATT-AGTCTAATC
127 CCCGGCTCAATTTTGCATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCA-TCAAACC
* * * * *
3418 AAATCTCAG-ACATATCGGATTTAAGGATTTGTTTTTACGTGCATGTGCATTAGAATCTTGTTTC
191 AAATCTCAGCA-ATATTGGATATAAGGATTTGTTTTTTCGAGCA--T-C--T-CAATCTTGTTTC
* * * * * * * *
3482 GATTTAAATAAAAAATTAA--CTGAGAAAAATCTGAAAAACGATATTAAAAGCGTTAAAAGTCCT
249 GATTT-AATTAGAAATTAATTCGGAAAAAAAT-GGAAAAACGATATTAGAAGCGTGAAAAGTCCA
*
3545 TCAATCTTTT
312 TCAATATTTT
*
3555 T-GCGTTGAATTATATATATTTTT
1 TGGCATTGAATTATATAT-TTTTT
3578 ATAAGTGCCT
Statistics
Matches: 2847, Mismatches: 343, Indels: 123
0.86 0.10 0.04
Matches are distributed among these distances:
318 435 0.15
319 82 0.03
320 194 0.07
321 268 0.09
322 248 0.09
323 333 0.12
324 277 0.10
325 530 0.19
326 243 0.09
327 97 0.03
328 74 0.03
329 39 0.01
330 17 0.01
331 10 0.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (321 bp):
TGGCATTGAATTATATATTTTTTCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTCGGGTCA
GTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCG
GCTCAATTTTGCATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATC
TCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGA
AATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCAATATTTT
Found at i:2075 original size:639 final size:641
Alignment explanation
Indices: 1--3570 Score: 4510
Period size: 639 Copynumber: 5.5 Consensus size: 641
* * * * *
1 TGGCATTGAA--ATATATATTTTCTTTGTGTATTTTGGTAAAAAATTGAGAAAAAAATTTTCGGG
1 TGGCATTGAATTATATATATTTTC--TGTTTATTGTGGCAAAAAATTGAGAAAAAACTTATCGGG
* * * *
64 TCAGTTTTTAGCCTAAATTGTATACTAACAATCACTGTTTTTGGCTAAAAACGCGTTCCGGAG-C
64 TCAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTC
* * *
128 ACCGGCTCAATTTTGCATGA-TTTTGGTACAAAGACTCCTT-TAATATCTATATTTATCAAACCA
129 -CCGGCTCAATTTTGTATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACC-
*
191 AAATCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAA
192 AAATCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCAATTTAA
* *
256 TTAGAAATTAATTCGGTAAAAAAATGGGAAAACGATATTAGAAGCGTGAAAAGTCCTTCAATATT
257 TTAGAAATTAATTCGG--AAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCAATATT
* * *
321 TTTGACATTGAATTATATAATTTTTCCTGTGTTTTGTGGCAAAAAATTGAGAAAAAAAAAATTTC
320 TTTGGCATTGAATTATAT-ACTTTT-CTGTGTATTGTGGCAAAAAATTGAG---AAAAAAATTTC
* * * * * *
386 GGGTCAGTTTTTAGCCAAAATTGTGTACTAACCGTTACAGTTTTTGGCTAAAAACACGTTCTGGA
380 GGGTCAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGA
* * * * * * * *
451 GTCCCAGCTCAGTTTTGCTTGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAAC
445 GCCCCGGCTGAATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAAG
*
516 CAAAATCTCAGCAATATTGAATATAAGGATTTG-TTTTTCGAGCATCTCAATCTTGTTTCGATTT
510 C-AAATCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTT
* * * * *
580 AATTAGAAATTAATTCGGAAAAAAAATCGAAAAACGCTATTAGAAGCGTGTGAAAGGTCCATCAA
574 AATTAGAAATTAATTCGG-AAAAAAATGGAAAAACGATATTAGAAGC--GTGAAAAGTTCGTCAA
*
645 TATTTC
636 TATTTT
* **
651 TGGCATTGAATTATATTATATTTT-TGTGTT-TTGTGGCAAAAATTTGAGGAAAAAA-AAATTCG
1 TGGCATTGAATTATA-TATATTTTCTGT-TTATTGTGGCAAAAAATTGA-GAAAAAACTTA-TCG
* * * *
713 GGTCAATTTTTAGCTGAAATTGTATACTAACTATCACGG-TTTTGGCTAAAAACGCGTTCCGGAG
62 GGTCAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAG
* ** ** *
777 CCCCAACTCAATTTTCCATTATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACC
127 TCCCGGCTCAATTTTGTATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACC
* * * *
842 AATAATTATCTCATCATTATTGGATATAAGGATTTG-TTTTT----CATCTCAATCATGTTTCGA
192 ---AA--ATCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCAA
* * * * * *
902 TTTAATTAGAAATTAA-TCAGGAAAAAAAATTAGAAAAACGATATTAGAATCGTAAAAATTTCGT
252 TTTAATTAGAAATTAATTC-GG--AAAAAA-TGGAAAAACGATATTAGAAGCGTGAAAAGTCCAT
* ** *
966 CAATATTTTTGGCATTGAATTATATATCTTTTCTGTTTGCTGGGGCAAAAAATTGAGAAAAAAAA
313 CAATATTTTTGGCATTGAATTATATA-CTTTTCTGTGTATTGTGGCAAAAAATTGAG-AAAAAAA
* * * *
1031 TTTTCGAGTCAGTTTTTAGCCGAAATTTTGTACTAACCATCATGGTTTTTGGCTAAAACCGCGTT
376 -TTTCGGGTCAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTT
* * *
1096 CCGGAGTCACGGCTGAATTTTGCATGATTTTTGGCACAAAGACTCCTTAAAATATCTATATTCAT
440 CCGGAGCCCCGGCTGAATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCAT
*
1161 CGAGGCAAATCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCG
505 CGAAGCAAATCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCG
** * *
1226 ATTTAATTAGAAATTAATTCGGTGAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCTTCA
570 ATTTAATTAGAAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTTCGTCA
1291 ATATTTT
635 ATATTTT
* *
1298 TGGCATTGAATTATATATTTTTTCTGTTTGTTGTGGCAAAAAATTGAGAAAAAACTTATCGGGTC
1 TGGCATTGAATTATATATATTTTCTGTTTATTGTGGCAAAAAATTGAGAAAAAACTTATCGGGTC
*
1363 AGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGTCCC
66 AGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTCCC
*
1428 GTCTCAATTTTGTATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAAT
131 GGCTCAATTTTGTATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAAT
1493 CTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCAATTTAATTAG
196 CTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCAATTTAATTAG
* *
1558 AAATTAATTCGGAAAAAATGGAAAAACGATATTAGAAGCTTGAAAAGTCCATCAATATTTCTGGC
261 AAATTAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCAATATTTTTGGC
* * *
1623 ATTGAATTATATACTTTT-TGTGTATTGTGACAAAAAATTGAGAAAAAAATTTTGGGTAAGTTTT
326 ATTGAATTATATACTTTTCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTCGGGTCAGTTTT
* * *
1687 TAGCCGAAATTGTGTACAAACCATCACGGGTTTTGGCTAAAAATGCGTTCCGGAGCCCCGGCTGA
391 TAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTGA
* * *
1752 ATTTTGCATGAGTTTTT-GCACAAAGACTCCTTGAAATAACTATATTCATCGAGGCAAATCTCAA
456 ATTTTGCATGA-TTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAAGCAAATCTCAG
* *
1816 CAATATTGGATATAATGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAACT
520 CAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATT
* *
1881 AATTCGG-CAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTTCGACAATATTTT
585 AATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTTCGTCAATATTTT
1937 TGGCATTGAATTATATATATTTTCTGTTTATTGTGGCAAAAAATTGAGAAAAAACTTATCGGGTC
1 TGGCATTGAATTATATATATTTTCTGTTTATTGTGGCAAAAAATTGAGAAAAAACTTATCGGGTC
* * *
2002 AGTTTTTAGCCGAAATTATGTACTAACCATCACGGTTTTTGGGTAAAAACGCGTTCCAGAGTCCC
66 AGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTCCC
2067 GGCTCAATTTTGTATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAAT
131 GGCTCAATTTTGTATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAAT
2132 CTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCAATTTAATTAG
196 CTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCAATTTAATTAG
* *
2197 AAATTAATTCGG-AAAAATGGAAAAACGATATTAGAAGCTTGAAAAGTCCATCAATATTTCTGGC
261 AAATTAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCAATATTTTTGGC
* *
2261 ATTGAATTATATACTTTTTTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTCAGGTCAGTTTT
326 ATTGAATTATATACTTTTCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTCGGGTCAGTTTT
* *
2326 TAGCCGAAATTGTGTACAAACCATCACGGTTTTTTGCTAAAAACGCGTTCCGGAGCCCCGGCTGA
391 TAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTGA
*
2391 ATTTTGCATGAGTTTTT-GCACAAAAACTCCTTGAAATAAT-TATATTCATCGAAGCAAATCTCA
456 ATTTTGCATGA-TTTTTGGCACAAAGACTCCTTGAAAT-ATCTATATTCATCGAAGCAAATCTCA
* * *
2454 GCAATATTGGATATAATGATTTGGTTTTTCGAGCATCTTAATCTTGTTTCGATTTAATTAGAAAT
519 GCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAAT
2519 TAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTTCGTCAATATTTT
584 TAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTTCGTCAATATTTT
* *
2577 TGGCATTGAATTATATATTTTTTCTGTTTGTTGTGGCAAAAAAATTGAGAAAAAACTTATCGGGT
1 TGGCATTGAATTATATATATTTTCTGTTTATTGTGGC-AAAAAATTGAGAAAAAACTTATCGGGT
*
2642 CAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGACC
65 CAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTCC
* * *
2707 CGGCTCAATTTTGTATGATTTTTGGTACAGAGATTCATTGAAATATCTATATTCATCAAACCAAA
130 CGGCTCAATTTTGTATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAA
* * *
2772 TCTCAGCAATATTGGGTATAAGGATTTGTTTTTTCGAGTATCTCATTCTTGTTTCAATTTAATTA
195 TCTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCAATTTAATTA
* * * * * * * *
2837 GAAATTAATTCGAAAAAAAAAAAAGGAAAAACGATATTAGAAGCGTGTAAAGCCCGTTAGTCTTT
260 GAAATTAATTCG----GAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCAATATTT
* * * * * **
2902 TTGGCGTTGAATTATATATTTTTTCTGTGAATTGTGGTAAAAAAATGAGAAAAAATATTTCAAGT
321 TTGGCATTGAATTATATA-CTTTTCTGTGTATTGTGGCAAAAAATTGAGAAAAAA-ATTTCGGGT
* * * * * * *
2967 CAGCTTTTAGTCAAAATCGTGTACTAACCATCACTGTTTTTGGCTAAAAACACGTTCCGGAGCTC
384 CAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCC
* * * * * * *
3032 CGTCTCAATTTTACATGATTTTTGGCGCAAAGACTCCTTAAAACATCTTTATTCATCGAA-CTAA
449 CGGCTGAATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAAGC-AA
* * * * *
3096 ATATCAG-ACACATTGGATATAAGGATTTGTTTTTAT-GAGTATCTGAATCTTGTTTCGATTTTA
513 ATCTCAGCA-ATATTGGATATAAGGATTTGTTTTT-TCGAGCATCTCAATCTTGTTTCGATTTAA
* * * ** *
3159 TTAGAAATTAATTCGAAGAAAAAAATGAAAAAATGATATTAAAAGCGTGAAAAGCCCGTTAATAT
576 TTAGAAATTAATTCG--GAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTTCGTCAATAT
3224 TTT
639 TTT
** * ** * *
3227 TGGTGTTAAATTATATAT-TTTTCTGAGTATTGTGGTC-AAAAATTGAAAAAAAAAACTT-TTGG
1 TGGCATTGAATTATATATATTTTCTGTTTATTGTGG-CAAAAAATTG--AGAAAAAACTTATCGG
* ** * * * * **
3289 GTCAGTTTTTAGCCGAAATTGTGTAATAATTATAACGGTTTTTTGACTAAAAACACATT-TTGAG
63 GTCAGTTTTTAGCCGAAATTGTGTACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTCCGGAG
** * * ** ** * * * *
3353 -CCACGGCTCTGTTTTGCATGGTTTTTGGCGCCGACACTGCTTGAAATATCTTTATT-AGTCTAA
127 TCC-CGGCTCAATTTTGTATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCA-TCAAA
* * * * * *
3416 TCAAATCTCAG-ACATATCGGATTTAAGGATTTGTTTTTACGTGCATGTGCATTAGAATCTTGTT
190 CCAAATCTCAGCA-ATATTGGATATAAGGATTTGTTTTTTCGAGCA--T-C--T-CAATCTTGTT
* * * * * * *
3480 TCGATTTAAATAAAAAATTAA--CTGAGAAAAATCTGAAAAACGATATTAAAAGCGTTAAAAGTC
248 TCAATTT-AATTAGAAATTAATTCGGA-AAAAAT-GGAAAAACGATATTAGAAGCGTGAAAAGTC
* * *
3543 CTTCAATCTTTTT-GCGTTGAATTATATA
310 CATCAATATTTTTGGCATTGAATTATATA
3571 TATTTTTATA
Statistics
Matches: 2606, Mismatches: 251, Indels: 125
0.87 0.08 0.04
Matches are distributed among these distances:
638 70 0.03
639 541 0.21
640 277 0.11
641 236 0.09
642 46 0.02
643 10 0.00
644 54 0.02
645 6 0.00
646 109 0.04
647 212 0.08
648 190 0.07
649 198 0.08
650 322 0.12
651 152 0.06
652 114 0.04
653 8 0.00
654 4 0.00
655 19 0.01
656 38 0.01
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (641 bp):
TGGCATTGAATTATATATATTTTCTGTTTATTGTGGCAAAAAATTGAGAAAAAACTTATCGGGTC
AGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTCCC
GGCTCAATTTTGTATGATTTTTGGTACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAAT
CTCAGCAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCAATTTAATTAG
AAATTAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTCCATCAATATTTTTGGC
ATTGAATTATATACTTTTCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTCGGGTCAGTTTT
TAGCCGAAATTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTGA
ATTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAAGCAAATCTCAGC
AATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTA
ATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGTTCGTCAATATTTT
Found at i:6150 original size:30 final size:32
Alignment explanation
Indices: 6097--6161 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
6087 AAACTTTATG
* *
6097 TTTTCCAATTGTACTCTTATTTTTAAAATATA
1 TTTTCCAATTGTACCCTTATTTTTAAAACATA
*
6129 TTTT-CAATTTTACCCTT-TTTTTAAAACATA
1 TTTTCCAATTGTACCCTTATTTTTAAAACATA
6159 TTT
1 TTT
6162 CTAAATTGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 15 0.50
31 11 0.37
32 4 0.13
ACGTcount: A:0.29, C:0.14, G:0.02, T:0.55
Consensus pattern (32 bp):
TTTTCCAATTGTACCCTTATTTTTAAAACATA
Found at i:7342 original size:22 final size:22
Alignment explanation
Indices: 7294--7394 Score: 89
Period size: 22 Copynumber: 4.5 Consensus size: 22
7284 CTGAAAATTT
* * *
7294 TCAAAATTTTATAGGAAGGTTTA
1 TCAAAATTTCATTGGGAGG-TTA
*
7317 TCAAAATTTCATTGGGAAGTTA
1 TCAAAATTTCATTGGGAGGTTA
* *
7339 TCAAAATTTCATAT-TGAGGTTT
1 TCAAAATTTCAT-TGGGAGGTTA
*
7361 TCAAAA-TTCTTTAGGGAGGTTA
1 TCAAAATTTCATT-GGGAGGTTA
*
7383 ACAAAATTTCAT
1 TCAAAATTTCAT
7395 AAGAAAGTTA
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
20 1 0.02
21 4 0.06
22 37 0.60
23 20 0.32
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
TCAAAATTTCATTGGGAGGTTA
Found at i:7345 original size:45 final size:44
Alignment explanation
Indices: 7294--7395 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
7284 CTGAAAATTT
*
7294 TCAAAATTTTATA-GGAAGGTTTATCAAAATTTCATT-GGGAAGTTA
1 TCAAAATTTCATATGG-AGGTTT-TCAAAA-TTCATTAGGGAAGTTA
* * *
7339 TCAAAATTTCATATTGAGGTTTTCAAAATTCTTTAGGGAGGTTA
1 TCAAAATTTCATATGGAGGTTTTCAAAATTCATTAGGGAAGTTA
*
7383 ACAAAATTTCATA
1 TCAAAATTTCATA
7396 AGAAAGTTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
43 5 0.10
44 26 0.52
45 18 0.36
46 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (44 bp):
TCAAAATTTCATATGGAGGTTTTCAAAATTCATTAGGGAAGTTA
Found at i:7388 original size:44 final size:45
Alignment explanation
Indices: 7310--7395 Score: 122
Period size: 44 Copynumber: 1.9 Consensus size: 45
7300 TTTTATAGGA
*
7310 AGGTTTATCAAAATTTCATTGGGAAGTTATCAAAATTTCATATTG
1 AGGTTTATCAAAATTTCATTGGGAAGTTAACAAAATTTCATATTG
* *
7355 AGGTTT-TCAAAA-TTCTTTAGGGAGGTTAACAAAATTTCATA
1 AGGTTTATCAAAATTTCATT-GGGAAGTTAACAAAATTTCATA
7396 AGAAAGTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 5 0.14
44 26 0.70
45 6 0.16
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (45 bp):
AGGTTTATCAAAATTTCATTGGGAAGTTAACAAAATTTCATATTG
Found at i:7468 original size:22 final size:22
Alignment explanation
Indices: 7296--7481 Score: 71
Period size: 22 Copynumber: 8.5 Consensus size: 22
7286 GAAAATTTTC
* *
7296 AAAATTTTATAGGAAGGTTTATC
1 AAAATTTCATAGGAAGG-TTATT
* *
7319 AAAATTTCATTGGGAA-GTTATC
1 AAAATTTCA-TAGGAAGGTTATT
*
7341 AAAATTTCATATTG-AGGTT-TT
1 AAAATTTCATA-GGAAGGTTATT
* * **
7362 CAAAA-TTCTTTAGGGAGGTTAAC
1 -AAAATTTC-ATAGGAAGGTTATT
* * *
7385 AAAATTTCATAAGAAAGTTA-A
1 AAAATTTCATAGGAAGGTTATT
* ** * *
7406 AAAAATT-ATAAAAAGATTCTT
1 AAAATTTCATAGGAAGGTTATT
* * * **
7427 GAAATTCCATAGTATCGTTATT
1 AAAATTTCATAGGAAGGTTATT
7449 AAAATTTCATAGGAAGGTTATCT
1 AAAATTTCATAGGAAGGTTAT-T
7472 -AAATTTCATA
1 AAAATTTCATA
7482 ATGGGATCAT
Statistics
Matches: 118, Mismatches: 34, Indels: 23
0.67 0.19 0.13
Matches are distributed among these distances:
20 8 0.07
21 17 0.14
22 75 0.64
23 13 0.11
24 5 0.04
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (22 bp):
AAAATTTCATAGGAAGGTTATT
Found at i:7673 original size:31 final size:31
Alignment explanation
Indices: 7638--7702 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
7628 AACTTTATGT
* * *
7638 TTTCCGATTATACTCTTATT-TTTAAAATATA
1 TTTCCAATTATACCCTT-TTATTTAAAACATA
*
7669 TTTCCAATTGTACCCTTTTATTTAAAACATA
1 TTTCCAATTATACCCTTTTATTTAAAACATA
7700 TTT
1 TTT
7703 GATTTTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (31 bp):
TTTCCAATTATACCCTTTTATTTAAAACATA
Found at i:7828 original size:22 final size:22
Alignment explanation
Indices: 7720--7828 Score: 114
Period size: 22 Copynumber: 5.0 Consensus size: 22
7710 TTATCTCTAT
*
7720 GTGGTTATCAAAATTTCATA-A
1 GTGGTTACCAAAATTTCATAGA
** * *
7741 GATGGTTATTATAATTCCAT-GA
1 G-TGGTTACCAAAATTTCATAGA
* *
7763 GGAGGTTACCAAAATTTCATAGT
1 -GTGGTTACCAAAATTTCATAGA
*
7786 GTAGTTACCAAAATTTCATAGA
1 GTGGTTACCAAAATTTCATAGA
7808 GTGGTTACCAAAATTTCATAG
1 GTGGTTACCAAAATTTCATAG
7829 GAGCAGGTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.01
22 68 0.96
23 2 0.03
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (22 bp):
GTGGTTACCAAAATTTCATAGA
Found at i:8050 original size:22 final size:21
Alignment explanation
Indices: 8002--8301 Score: 106
Period size: 22 Copynumber: 13.8 Consensus size: 21
7992 CTTCATTGGG
*
8002 AGGTTATCAAAATTTTATAGTA
1 AGGTTATCAAAATTTCATAG-A
*
8024 TGGTTATCAAAATTTCATATGA
1 AGGTTATCAAAATTTCATA-GA
*
8046 AGGTTATAAAGTCTCAATTTCATAAGA
1 AGGTTATCAA-----AATTTCAT-AGA
* *
8073 A-G-TACCAAAATTTGATAGA
1 AGGTTATCAAAATTTCATAGA
8092 AGGTTATC--AA---CATAG-
1 AGGTTATCAAAATTTCATAGA
* *
8107 AGTGATTATCGAAATTTTATAAAGA
1 AG-G-TTATCAAAATTTCAT--AGA
8132 TAGGATTATCAAAATTT-ATATGA
1 -AGG-TTATCAAAATTTCATA-GA
* *
8155 AGATTATCAAAATGTCAGT-G-
1 AGGTTATCAAAATTTCA-TAGA
** *
8175 TTGTTATCAAAATTTCA-AAA
1 AGGTTATCAAAATTTCATAGA
*
8195 CGAGGTTATCAAAATTACATA-A
1 --AGGTTATCAAAATTTCATAGA
*
8217 TGTGATTATCAAAATTTCATAGA
1 AG-G-TTATCAAAATTTCATAGA
* * *
8240 AGGGTCAACAAAATTTTATA-A
1 A-GGTTATCAAAATTTCATAGA
* *
8261 AGATGTTATCAAAATTTTATAAA
1 AG--GTTATCAAAATTTCATAGA
*
8284 GAGGTTATCAAATTTTCA
1 -AGGTTATCAAAATTTCA
8302 AAATGTGACG
Statistics
Matches: 211, Mismatches: 31, Indels: 72
0.67 0.10 0.23
Matches are distributed among these distances:
15 2 0.01
16 5 0.02
17 5 0.02
19 8 0.04
20 23 0.11
21 18 0.09
22 103 0.49
23 8 0.04
24 7 0.03
25 17 0.08
26 3 0.01
27 11 0.05
28 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (21 bp):
AGGTTATCAAAATTTCATAGA
Found at i:8146 original size:25 final size:26
Alignment explanation
Indices: 8110--8158 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
8100 AACATAGAGT
*
8110 GATTATCGAAATTT-TATAAAGATAG
1 GATTATCAAAATTTATATAAAGATAG
*
8135 GATTATCAAAATTTATATGAAGAT
1 GATTATCAAAATTTATATAAAGAT
8159 TATCAAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.37
Consensus pattern (26 bp):
GATTATCAAAATTTATATAAAGATAG
Found at i:8231 original size:44 final size:44
Alignment explanation
Indices: 8178--8309 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 44
8168 GTCAGTGTTG
*
8178 TTATCAAAATTTCA-AAACGAGGTTATCAAAATTACATAATGTGA
1 TTATCAAAATTTCATAAA-GAGGTTATCAAAATTTCATAATGTGA
* * * *
8222 TTATCAAAATTTCATAGAAG-GGTCAACAAAATTTTATAAAGATG-
1 TTATCAAAATTTCATA-AAGAGGTTATCAAAATTTCATAATG-TGA
* * *
8266 TTATCAAAATTTTATAAAGAGGTTATCAAATTTTCAAAATGTGA
1 TTATCAAAATTTCATAAAGAGGTTATCAAAATTTCATAATGTGA
8310 CGAAGAAAAC
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
43 5 0.07
44 60 0.85
45 4 0.06
46 2 0.03
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (44 bp):
TTATCAAAATTTCATAAAGAGGTTATCAAAATTTCATAATGTGA
Found at i:8298 original size:21 final size:22
Alignment explanation
Indices: 8177--8299 Score: 117
Period size: 22 Copynumber: 5.6 Consensus size: 22
8167 TGTCAGTGTT
*
8177 GTTATCAAAATTTCA-AAACGAG
1 GTTATCAAAATTTTATAAA-GAG
** * *
8199 GTTATCAAAATTACATAATGTG
1 GTTATCAAAATTTTATAAAGAG
* *
8221 ATTATCAAAATTTCATAGAAG-G
1 GTTATCAAAATTTTATA-AAGAG
* * *
8243 GTCAACAAAATTTTATAAAGAT
1 GTTATCAAAATTTTATAAAGAG
8265 GTTATCAAAATTTTATAAAGAG
1 GTTATCAAAATTTTATAAAGAG
8287 GTTATC-AAATTTT
1 GTTATCAAAATTTT
8300 CAAAATGTGA
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
21 10 0.12
22 70 0.83
23 4 0.05
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (22 bp):
GTTATCAAAATTTTATAAAGAG
Done.