Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009536.1 Hibiscus syriacus cultivar Beakdansim tig00116272_pilon, 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: 7203
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Found at i:1129 original size:293 final size:299
Alignment explanation
Indices: 1--7203 Score: 11874
Period size: 292 Copynumber: 24.6 Consensus size: 299
1 CCCCACTCCAGGCA-GCGGAATAC-TACGTGTGC-GTGTTTC--GATAGAAT---AA-AAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTGTG-TTCGAGATAGAATAAAAAGAAAATAA
57 TCCGAAAAGAGGGGTGCAACACGAGGACTT-CCA-GAGGTCACCCATCCTAGTACTACTCTCGCC
65 TCCGAAAAGA-GGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
120 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCT-GTATGATCGCACCCG
129 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
184 TCATGCCTTGCGCCCTTAATTTATTAAAGGCGTTCG-TTTCTT-C--CCCGCACTAAAGGGAGTC
194 TCATGCCTTGCGCCCTTAATTTATT-AAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTC
245 GCAAAATTCGGATTCTAACGCCCCGAACCTTTCCTCCCCAAGTA
258 GCAAAATTCGGATTCT-ACGCCCCGAACCTTT-CTCCCCAAGTA
289 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAG--AATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGC-TGTGTTCGAGATAGAATAAAAAGAAAATAA
352 TCCGAAAAGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTC-CC
65 TCCGAAAAGA-GGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
416 CAAGCACGCTTAACTGCGGAGTTCTGAT-GGATCC-GTGCATTAGTGCTGGTATGATCGCACCCG
129 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
*
479 TCATGCCTTGCGCCCTTAATTTATTAAGGCGTTTGTTTTCTTCCGGCCC-CACT-AAGGGAGTCG
194 TCATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCG
542 C-AAATTCGGATTCTACG-CCCGAACCTTTCTCCCCAAGTA
259 CAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
581 CCCCACTCCAGGCAGGC-GAATACGTACGTGTGC-G-GTTCGAGATAGAATAAAAAGAAAATAAT
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTGTGTTCGAGATAGAATAAAAAGAAAATAAT
643 CCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCA
66 CCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCA
708 AGCACGCTTAACTGCGGAGTTCTGATGGGATCC-GTGCATTAGTGCTGGTATGATCGCACCCGTC
131 AGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTC
772 ATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGG-GTCGC-
196 ATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCGCA
835 AAATTCGGATTCTACGCCCC-AACCTTTCTCCCCAAGTA
261 AAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
873 CCCCACTCCAGGCAGGCGGAATACGTAC-TGTGCTGTGTTCGAGATAGAAT-AAAAG-AAATAAT
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTGTGTTCGAGATAGAATAAAAAGAAAATAAT
935 CCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCA
66 CCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCA
1000 AGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTC
131 AGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTC
1065 ATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAA-GGAGTCGC-
196 ATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCGCA
1128 AAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
261 AAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
1167 -CCCACTCCAGGCA-GC-GAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGC-TGTGTTCGAGATAGAATAAAAAGAAAATAA
*
1229 TCAGAAAAAGAGGGATAGC-ACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCG
65 TCCG-AAAAGAGGG-T-GCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCG
*
1293 CCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTTGTATGATCGCACC
127 CCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACC
1358 CGTCATGCCTTGCGCCCTTAATTTATTTAAGGCGTTCG-TTTCTTCCGGCCC-CACTTAAAGGGA
192 CGTCATGCCTTGCGCCCTTAATTTA-TTAAGGCGTTCGTTTTCTTCCGGCCCGCAC-TAAAGGGA
1421 GTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
255 GTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
1466 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGC-TGTGTTCGAGATAGAATAAAAAGAAAATAA
1531 TCCGAAAAGAGGG-GCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCC
65 TCCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCC
1595 AAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCA-CCGT
130 AAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGT
1659 CATGCCTTGC-CCCTTAATTTATTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCGC
195 CATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCGC
1723 -AAATTCGGATTCTACGCCCCGAACCTTTCT-CCCAAGTA
260 AAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
1761 CCCCACTCCAGGCAGGC-GAATACGTACGTGTGC-GTTGTTCGAGATAGAAT-AAAAGAAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTG-TGTTCGAGATAGAATAAAAAGAAAATAA
1823 TCCGAAAAAGAGGGTGC-ACACGAGGACTTCCCAGGA-GTCACCCATCCTAGTACTACTCTCGCC
65 TCCG-AAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
1886 CAAGCACGCTTAACTGCGGAG-TCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
129 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
1950 TCATGCCTTGCG-CCTTAATTTATTAAGGCGTTCGTTTTTCTCTCCGGCCCGCACT-AAGGGAGT
194 TCATGCCTTGCGCCCTTAATTTATTAAGGCGTTCG-TTTTCT-TCCGGCCCGCACTAAAGGGAGT
2013 CGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
257 CGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
2056 CCCCACTCCAGGCAGGCGGAATACGTACGT-TGCGTGTGTTCGAGATAGAATAAAAAG-AAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGC-TGTGTTCGAGATAGAATAAAAAGAAAATAA
*
2119 TCCGAAAAAGAGGGGTGCAACACGAGGACTTTCCAGGAGGTCACCCATCC---TACTACTCTCGC
65 TCCG-AAAAGA-GGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCG-
2181 CCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACC
127 CCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACC
2246 CGTCATGCCTTGCGCCCTTAATTTATTAAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAA-GGAG
192 CGTCATGCCTTGCGCCCTTAATTTATT-AAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAG
2310 TCGCAAAATTCGGATTTCTACGCCCCGAACCTTTTCTCCCCAAGTA
256 TCGCAAAATTCGGA-TTCTACGCCCCGAACC-TTTCTCCCCAAGTA
*
2356 CCCCACTCCAGGCA-GCGGAATACGTACTTGTGC-GTGTTCGAGATAGAATAAAAAGAAAATAAT
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTGTGTTCGAGATAGAATAAAAAGAAAATAAT
*
2419 CCGAAAA-AGGTTGCAACACGAGGACTTCCCAGGA-GTCACCCATCCTAGTACTACTCTCGCCCA
66 CCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCA
2482 AGCACGCTTAACTGCGGAGTTCTGATGGGATCC-GTGCATTA-TG-TGGTATGATCGCACCCGTC
131 AGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTC
2544 ATGCCTT-CGCCCTTAATTTATTAAGGCGTTCG-TTTCTTCC-GCCCGCACTAAAGGGAGTCGCA
196 ATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCGCA
*
2606 AAATTCGGATTCTACGCCCCTAACC-TTCTCCCCAAGTA
261 AAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
*
2644 CCCCACTCCAGGCA-GCGGAATACGTAC-TGTGCGGTGTTCGAGATAGAATAAAAAGAAAAT-AT
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTGTGTTCGAGATAGAATAAAAAGAAAATAAT
2706 CCGAAAAGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCC
66 CCGAAAAGA-GGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCC
2771 AAGCACGCTT-ACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGT
130 AAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGT
2835 CATGCCTTGCGCCCTTAATTTATTTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCG
195 CATGCCTTGCGCCCTTAATTTA-TTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCG
2900 CAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
259 CAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
*
2941 CCCCCACTCCA-GCA-GC-GAATACGTACGTG-G-TGTGTTCGATATAGAAT-AAAAGAAAATAA
1 -CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTGTGTTCGAGATAGAATAAAAAGAAAATAA
*
3000 TCCGAAAAAGAGGGTGCAACACGATGACTTCCCA-G-GGTCACCCATCCTAGTACTACTCTCGCC
65 TCCG-AAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
3063 CAAGCACGCTTAACTGCGGAGTTCTGAT-GGATCCGGTG-ATTA-TGCT-GTATGATCGCACCCG
129 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
3124 TCATGCC-TGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCC-GCCCGCACTAAAGGGAGTCG
194 TCATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCG
*
3187 CAAAATTCGTATTCTACGCCCCGAACCTTTCTCCCCAA-TA
259 CAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
3227 CCCCACT-CA-GCAGGCGGAATACGT-CGTGTG-TGTGTTCGAGATAGAAT-AAAAGAAAATAAT
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTGTGTTCGAGATAGAATAAAAAGAAAATAAT
*
3287 CCGAAAAAAGGGGTGCAACACCGAGGACTTCCCAGGA-GTCACCCATCCTAGTACTACTCTCGCC
66 CCGAAAAGA-GGGTGCAACA-CGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
3351 CAAGCA--CTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
129 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
3414 TCATGCCTTGCGCCCTTAATTTATTAAAGGCG-T--TTTTCTTCCCGGCCCGCACTAAAGGGAGT
194 TCATGCCTTGCGCCCTTAATTTATT-AAGGCGTTCGTTTTCTT-CCGGCCCGCACTAAAGGGAGT
3476 CGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
257 CGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
*
3519 CCCCCACTCCAGTCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATA
1 -CCCCACTCCAGGCAGGCGGAATACGTACGTGTGC-TGTGTTCGAGATAGAATAAAAAGAAAATA
3584 ATCCGAAAAGAGGGGTGCAACACGAGGACTTCCCAGGA-GTCACCCATCCTAGTACTACTCTCGC
64 ATCCGAAAAGA-GGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGC
3648 CC-AGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCC
128 CCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCC
*
3712 GTCATGCCTT--GCCCTTAATTTATTAAAGGCGTTCGTTTTCTTCCGG-CCACACT-AAGGGAGT
193 GTCATGCCTTGCGCCCTTAATTTATT-AAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGT
3773 CGCAAAATTCGGATTTCTACGCCCCGAACCTTTCT-CCCAAGTA
257 CGCAAAATTCGGA-TTCTACGCCCCGAACCTTTCTCCCCAAGTA
3816 CCCCACTCCA-GCA-GC-GAATACGTACGTGTG-TGTGTTCGAGATAGAATAAAAAGAAAAT-AT
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTGTGTTCGAGATAGAATAAAAAGAAAATAAT
3876 CCGAAAAAGAGGGTGC-ACACGAGGACTTCCCA-GAGGTCACCCATCCTA-TACTACTCTCGCCC
66 CCG-AAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCC
3938 AAGCACGCTT-ACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGG--T-ATCGCACCCGT
130 AAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGT
3999 CATGCCTTGCGCCCTTAATTTATTAAAGGCGTTCGTTTT-TCTCC--CCCGCACTAAAGGGAGTC
195 CATGCCTTGCGCCCTTAATTTATT-AAGGCGTTCGTTTTCT-TCCGGCCCGCACTAAAGGGAGTC
4061 GCAAAATTCGGATTCTACGCCCCG-ACCTTTCTCCCCAAGTA
258 GCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
*
4102 CCCCACTCCAGGCA-GCGGAATACGTACGTGCG-TGTGTTCGAGATAGAAT-AAAA-AAAAT-AT
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTGTGTTCGAGATAGAATAAAAAGAAAATAAT
4162 CCGAAAAGAGGGGTGCAACACGAGGACTT-CCA-GAGGTCACCCATCCTAGTACTACTCTCGCCC
66 CCGAAAAGA-GGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCC
4225 -AGCACGCTTAACTGCGGAGTTCTGATGGGATCC-GTGCATTAGTGCTGGTATGATCGCACCCGT
130 AAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGT
4288 CATGCCTTGCGCCCTTTAATTTATTAAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTC
195 CATGCCTTGCGCCC-TTAATTTATT-AAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTC
4353 GCAAAATTCGGATTCTACG-CCCGAACCTTTCTCCCCAAGTA
258 GCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
4394 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAAT-AAAAGAAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGC-TGTGTTCGAGATAGAATAAAAAGAAAATAA
*
4458 TCCGAAAAAAGGGGTGCAACACGAGGACTTCCCA-GAGGTCACCCATCCTAGTACTACTCTCGCC
65 TCCGAAAAGA-GGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
4522 CAAGCACG-TT-ACTGC-GA-TTCTGATGGGATCCGGTGCATTAGTGCTGGTA--ATCGCACCCG
129 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
*
4581 TCATGCCTTGCGCCCTTAATTTATTTAAAGCGTTCGTTTTTCTT-CGGCCCGCACTAAAGGGAGT
194 TCATGCCTTGCGCCCTTAATTTA-TTAAGGCGTTCG-TTTTCTTCCGGCCCGCACTAAAGGGAGT
4645 CGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
257 CGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
4688 CCCCACTCCAGGCAGGC-GAATACGTACGTGTGCTGTGTTCGAGATAGAAT--AAA-AAAA-AAT
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTGTGTTCGAGATAGAATAAAAAGAAAATAAT
4748 CCGAAAA-AGAGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCC
66 CCGAAAAGAG-GGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCG-CC
4812 CAAGCACGCTT-ACTGCGGAGTTCTGATGGGATCC-GTGCATTAGTGCTGGTATGATCGCACCC-
129 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
*
4874 TCATGCCTTGCGCCCTTAATTTATTAAGGCGTTCG-TTTCTTCCCCCGGCCC-TACTAAA-GGAG
194 TCATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTT---CCGGCCCGCACTAAAGGGAG
4936 TCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
256 TCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
4980 CCCCACTCCAGGCAGGCGGAATACG-ACGTGTGCGTGTGTTCGAGATAGAATAAAAAG-AAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGC-TGTGTTCGAGATAGAATAAAAAGAAAATAA
5043 TCC-AAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCC
65 TCCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCC
5107 AAGCACGCTTAACTGCGGA-TTCTGAT-GGATCC-G-GCATTAGTGCTGGTATGATCGCA-CCG-
130 AAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGT
5166 CATGCC-TGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCC-GCCCGCACTAAAGGGAGTCGC
195 CATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCGC
5229 -AAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
260 AAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
5268 CCCCACTCCAGGCA-GC-GAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGC-TGTGTTCGAGATAGAATAAAAAGAAAATAA
5331 TCCGAAAAGAGGG-GCAACACGAGGACTTCCCAGGA-GTC-CCCATCCTAGTACTACTCTCGCCC
65 TCCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCC
5393 AAGCACGCTTAACTGCGGAGTTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
130 AAGCACGCTTAACTGCGGAG-TTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
5458 TCATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCC-GCCCGCACTAAAGGGAGTCG
194 TCATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCG
5522 CAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
259 CAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
5563 CCCCACTCCA-GCAGGCGGAATACGTACGTGTGC-GTGTTCGAGATAGAATAAAAAGAAAATAAT
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTGTGTTCGAGATAGAATAAAAAGAAAATAAT
5626 CCGAAAAAGAGGGTGCAACACGAGGACTT-CCA-GAGGTCACCCATCCTAGTACTACTCTCGCCC
66 CCG-AAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCC
5689 AAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGT
130 AAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGT
5754 CATGCCTTGCGCCCTTAATTTATTTAAAGGCGTTC-TTTTCTTCCGGCCCGCACT-AAGGGA-TC
195 CATGCCTTGCGCCCTTAATTTA-TT-AAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTC
5816 GC-AAATTCGGATTCTAC-CCCCGAACCTTTCTCCCCAAGTA
258 GCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
5856 CCCC-CTCCAGGCA---GGAATAC-TACGTGTG-TGTGTTCGAGATAGAATAAAAAGAAAAT-AT
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTGTGTTCGAGATAGAATAAAAAGAAAATAAT
5914 CCGAAAAGAGGGTGCAACAC-AGGAC-TCCCA-GAGGTCA-CCATCCTAGTACTACTCTCGCCCA
66 CCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCA
5975 AGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAG-GCTGGTATGATCGCACCCGTC
131 AGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTC
6039 ATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTTCC-GCCCGCACTAAA-GGAGTCGC
196 ATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTC-TTCCGGCCCGCACTAAAGGGAGTCGC
6102 AAAATTCGGATTCTACGCCCC-AACCTTTCTCCCCAAGTA
260 AAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
6141 CCCCACTCCA-GCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGC-TGTGTTCGAGATAGAATAAAAAGAAAATAA
*
6205 TCCGAAAAAGAGGGATGCAACACGA-GACTTCCCA-GAGGTCACCCATCCTATTACTACTCTCGC
65 TCCG-AAAAGAGGG-TGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGC
6268 CCAAGCACGCTTAACTGC-GAGTTCTGATGGGATCC-GTGCATTAGTGCTGGTATGATCGCACCC
128 CCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCC
6331 GTCATGCCTT--GCCCTTAATTTATTAAAGGCG-TCGTTTTCTT-C-GCCCGCACT-AAGGGAGT
193 GTCATGCCTTGCGCCCTTAATTTATT-AAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGT
*
6390 CGCAAAATTCGGATTCTA--CTCCGAACCTTTCTCCCCAAGTA
257 CGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
*
6431 CCCCACTCCAGGCAGGCGGAATACGTAACGTGCG-TGT-TTCGAGATAGAAT-AAAAG-AAATAA
1 CCCCACTCCAGGCAGGCGGAATACGT-ACGTGTGCTGTGTTCGAGATAGAATAAAAAGAAAATAA
6492 TCCGAAAA-AGAGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCG-C
65 TCCGAAAAGAG-GGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
6555 CAAGCA--CTTAACTGCGGA-TTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACGCC
129 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCAC-CC
*
6617 GT-ATGCCTTGCGCCCTTAATTTATTAAGGCGTTTGTTTTCTTTCCGGCCCGCACTAAA--G-GT
193 GTCATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTC-TTCCGGCCCGCACTAAAGGGAGT
6678 CGCAAAATTCGGATTCTACGCCCCGAACCTTTCT-CCCAAGTA
257 CGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
6720 CCCCACTCCAGGCA-GCGGAATAC-TACGTGTGCGTGTGTTCGAGATAGAAT-AAAAGAAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGC-TGTGTTCGAGATAGAATAAAAAGAAAATAA
6782 TCCGAAAAAGAGGGATGCAACACGAGGACTTCCCA-GAGGTCACCC-TCCTAGTACTACTCTCGC
65 TCCG-AAAAGAGGG-TGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGC
6845 CCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCA-CC
128 CCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCC
6909 GTCATGCCTTGCGCCCTTAATTTATTAAAGGCGTTCGTTTTC-TCCGGCCCTGCACTAAAGGGAG
193 GTCATGCCTTGCGCCCTTAATTTATT-AAGGCGTTCGTTTTCTTCCGGCCC-GCACTAAAGGGAG
6973 TCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCC-AGTA
256 TCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
7016 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGC-TGTGTTCGAGATAGAATAAAAAGAAAATAA
7081 TCCGAAAAAGAGGGTGCAACACGAGGACTTCCCA-G-GGTCACCCATCCTAGTACTACTCTCGCC
65 TCCG-AAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
7144 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCC-GTGCATTAGTGCTGGTATGATCGCA
129 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCA
Statistics
Matches: 6608, Mismatches: 41, Indels: 523
0.92 0.01 0.07
Matches are distributed among these distances:
282 9 0.00
283 19 0.00
284 80 0.01
285 206 0.03
286 282 0.04
287 322 0.05
288 421 0.06
289 360 0.05
290 349 0.05
291 445 0.07
292 625 0.09
293 617 0.09
294 490 0.07
295 541 0.08
296 482 0.07
297 465 0.07
298 422 0.06
299 351 0.05
300 61 0.01
301 11 0.00
302 50 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (299 bp):
CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCTGTGTTCGAGATAGAATAAAAAGAAAATAAT
CCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCA
AGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTC
ATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCGCA
AAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
Found at i:3930 original size:874 final size:895
Alignment explanation
Indices: 1--7203 Score: 11831
Period size: 875 Copynumber: 8.2 Consensus size: 895
1 CCCCACTCCAGGCA-GCGGAATAC-TACGTGTGCGTGT-TTC--GATAGAAT---AA-AAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
57 TCCGAAAAGAGGGGTGCAACACGAGGACTT-CCA-GAGGTCACCCATCCTAGTACTACTCTCGCC
66 TCCGAAAAGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
120 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCT-GTATGATCGCACCCG
131 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
184 TCATGCCTTGCGCCCTTAATTTATTAAAGGCGTTCG-TTTCTT-C--CCCGCACTAAAGGGAGTC
196 TCATGCCTT-CGCCCTTAATTTATTAAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTC
245 GCAAAATTCGGATTCTAACGCCCCGAACCTTTCCTCCCCAAGTACCCCACTCCAGGCAGGCGGAA
260 GCAAAATTCGGATTCT-ACGCCCCGAACCTTT-CTCCCCAAGTACCCCACTCCAGGCAGGCGGAA
310 TACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAG--AATAATCCG-AAAAGAGGGGTGCAAC
323 TACGTACGTGT--GTGTGTTCGAGATAGAATAAAAAGAAAATAATCCGAAAAAGA-GGGTGCAAC
372 ACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTC-CCCAAGCACGCTTAACTGCGGA
385 ACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGA
436 GTTCTGAT-GGATCC-GTGCATTAGTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAAT
450 GTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAAT
*
499 TTATTAAGGCGTTTGTTTTCTTCCGGCCC-CACT-AAGGGAGTCGC-AAATTCGGATTCTACG-C
515 TTATTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCC
*
560 CCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGC-GAATACGTACGTGTGCG-GTTCGAGA
580 CCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATACGTACGTGTGTGTGTTCGAGA
623 TAGAATAAAAAGAAAATAATCCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCAT
645 TAGAATAAAAAGAAAATAATCCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCAT
688 CCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGTGCATTAGTGC
710 CCTAGTACTACTCTCGCCCAAGCAC-CTTAACTGCGGAGTTCTGATGGGATCCGTGCATTAGTGC
753 TGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCCGGCC
774 TGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTATTAAGGCGTTC-TTTTCTTCCGGCC
818 CGCACTAAAGGG-GTCGC-AAATTCGGATTCTACGCCCC-AACCTTTCTCCCCAAGTA
838 CGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
873 CCCCACTCCAGGCAGGCGGAATACGTAC-TGTGC-TGTGTTCGAGATAGAAT-AAAAG-AAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
934 TCCGAAAAGA-GGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
66 TCCGAAAAGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
998 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
131 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
1063 TCATGCCTTGCGCCCTTAATTTATT-AAGGCGTTCGTTTTCTTCCGGCCCGCACTAAA-GGAGTC
196 TCATGCCTT-CGCCCTTAATTTATTAAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTC
1126 GC-AAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA-CCCACTCCAGGCA-GC-GAATA
260 GCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATA
*
1187 CGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAATCAGAAAAAGAGGGATAGC-ACA
325 CGTACGTGT--GTGTGTTCGAGATAGAATAAAAAGAAAATAATCCGAAAAAGAGGG-T-GCAACA
1251 CGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAG
386 CGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAG
*
1316 TTCTGATGGGATCCGGTGCATTAGTGCTTGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATT
451 TTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATT
1381 TATTTAAGGCGTTCG-TTTCTTCCGGCCC-CACTTAAAGGGAGTCGCAAAATTCGGATTCTACGC
516 TA-TTAAGGCGTTCGTTTTCTTCCGGCCCGCAC-TAAAGGGAGTCGCAAAATTCGGATTCTACGC
1444 CCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCG
579 CCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATACGTACGTGT--GTGTGTTCG
1509 AGATAGAATAAAAAGAAAATAATCCGAAAAGAGGG-GCAACACGAGGACTTCCCAGGAGGTCACC
642 AGATAGAATAAAAAGAAAATAATCCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACC
1573 CATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTA
707 CATCCTAGTACTACTCTCGCCCAAGCAC-CTTAACTGCGGAGTTCTGATGGGATCC-GTGCATTA
1638 GTGCTGGTATGATCGCA-CCGTCATGCCTTGC-CCCTTAATTTATTAAGGCGTTCGTTTTCTTCC
770 GTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTATTAAGGCGTTC-TTTTCTTCC
1701 GGCCCGCACTAAAGGGAGTCGC-AAATTCGGATTCTACGCCCCGAACCTTTCT-CCCAAGTA
834 GGCCCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
1761 CCCCACTCCAGGCAGGC-GAATACGTACGTGTGCGT-TGTTCGAGATAGAAT-AAAAGAAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
1823 TCCGAAAA-AGAGGGTGC-ACACGAGGACTTCCCAGGA-GTCACCCATCCTAGTACTACTCTCGC
66 TCCGAAAAGAG-GGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGC
1885 CCAAGCACGCTTAACTGCGGAG-TCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCC
130 CCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCC
1949 GTCATGCCTT-GCGCCTTAATTTATT-AAGGCGTTCGTTTTTCTCTCCGGCCCGCACT-AAGGGA
195 GTCATGCCTTCGC-CCTTAATTTATTAAAGGCGTTCG-TTTTCT-TCCGGCCCGCACTAAAGGGA
2011 GTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGA
257 GTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGA
*
2076 ATACGTACGTTGCGTGTGTTCGAGATAGAATAAAAAG-AAATAATCCGAAAAAGAGGGGTGCAAC
322 ATACGTACG-TGTGTGTGTTCGAGATAGAATAAAAAGAAAATAATCCGAAAAAGA-GGGTGCAAC
*
2140 ACGAGGACTTTCCAGGAGGTCACCCATCC---TACTACTCTCGCCCCAAGCACGCTTAACTGCGG
385 ACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCG-CCCAAGCACGCTTAACTGCGG
2202 AGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAA
449 AGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAA
2267 TTTATTAAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAA-GGAGTCGCAAAATTCGGATTTCTAC
514 TTTATT-AAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCGCAAAATTCGGA-TTCTAC
* *
2331 GCCCCGAACCTTTTCTCCCCAAGTACCCCACTCCAGGCA-GCGGAATACGTACTTGTGCGTGTTC
577 GCCCCGAACC-TTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATACGTACGTGTGTGTGTTC
*
2395 GAGATAGAATAAAAAGAAAATAATCCGAAAA-AGGTTGCAACACGAGGACTTCCCAGGA-GTCAC
641 GAGATAGAATAAAAAGAAAATAATCCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCAC
2458 CCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGTGCATTA
706 CCATCCTAGTACTACTCTCGCCCAAGCAC-CTTAACTGCGGAGTTCTGATGGGATCCGTGCATTA
*
2523 -TG-TGGTATGATCGCACCCGTCATGCCTT-CGCCCTTAATTTATTAAGGCGTTCGTTTCTTCC-
770 GTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTATTAAGGCGTTCTTTTCTTCCG
*
2584 GCCCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCCTAACC-TTCTCCCCAAGTA
835 GCCCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
2644 CCCCACTCCAGGCA-GCGGAATACGTAC-TGTGCG-GTGTTCGAGATAGAATAAAAAGAAAAT-A
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
2705 TCCGAAAAGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
66 TCCGAAAAGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
2770 CAAGCACGCTT-ACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
131 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
*
2834 TCATGCCTTGCGCCCTTAATTTATTTAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTC
196 TCATGCCTT-CGCCCTTAATTTATTAAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTC
2899 GCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTACCCCCACTCCA-GCA-GC-GAAT
260 GCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA-CCCCACTCCAGGCAGGCGGAAT
*
2961 ACGTACGTG-GTGTGTTCGATATAGAAT-AAAAGAAAATAATCCGAAAAAGAGGGTGCAACACGA
324 ACGTACGTGTGTGTGTTCGAGATAGAATAAAAAGAAAATAATCCGAAAAAGAGGGTGCAACACGA
*
3024 TGACTTCCCA-G-GGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTC
389 GGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTC
3087 TGAT-GGATCCGGTG-ATTA-TGCT-GTATGATCGCACCCGTCATGCC-TGCGCCCTTAATTTAT
454 TGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTAT
*
3147 TAAGGCGTTCGTTTTCTTCC-GCCCGCACTAAAGGGAGTCGCAAAATTCGTATTCTACGCCCCGA
519 TAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCCGA
3211 ACCTTTCTCCCCAA-TACCCCACT-CA-GCAGGCGGAATACGT-CGTGTGTGTGTTCGAGATAGA
584 ACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATACGTACGTGTGTGTGTTCGAGATAGA
*
3272 AT-AAAAGAAAATAATCCGAAAAAAGGGGTGCAACACCGAGGACTTCCCAGGA-GTCACCCATCC
649 ATAAAAAGAAAATAATCCGAAAAGA-GGGTGCAACA-CGAGGACTTCCCAGGAGGTCACCCATCC
3335 TAGTACTACTCTCGCCCAAGCA-CTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTG
712 TAGTACTACTCTCGCCCAAGCACCTTAACTGCGGAGTTCTGATGGGATCC-GTGCATTAGTGCTG
3399 GTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTATTAAAGGCG-T-TTTTCTTCCCGGCCC
776 GTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTATT-AAGGCGTTCTTTTCTT-CCGGCCC
3462 GCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
839 GCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
*
3519 CCCCCACTCCAGTCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATA
1 -CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATA
3584 ATCCGAAAAGAGGGGTGCAACACGAGGACTTCCCAGGA-GTCACCCATCCTAGTACTACTCTCGC
65 ATCCGAAAAGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGC
3648 CC-AGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCC
130 CCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCC
*
3712 GTCATGCCTT-GCCCTTAATTTATTAAAGGCGTTCGTTTTCTTCCGG-CCACACT-AAGGGAGTC
195 GTCATGCCTTCGCCCTTAATTTATTAAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTC
3774 GCAAAATTCGGATTTCTACGCCCCGAACCTTTCT-CCCAAGTACCCCACTCCA-GCA-GC-GAAT
260 GCAAAATTCGGA-TTCTACGCCCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAAT
3835 ACGTACGTGTGTGTGTTCGAGATAGAATAAAAAGAAAAT-ATCCGAAAAAGAGGGTGC-ACACGA
324 ACGTACGTGTGTGTGTTCGAGATAGAATAAAAAGAAAATAATCCGAAAAAGAGGGTGCAACACGA
3898 GGACTTCCCA-GAGGTCACCCATCCTA-TACTACTCTCGCCCAAGCACGCTT-ACTGCGGAGTTC
389 GGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTC
3960 TGATGGGATCCGGTGCATTAGTGCTGG--T-ATCGCACCCGTCATGCCTTGCGCCCTTAATTTAT
454 TGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTAT
4022 TAAAGGCGTTCGTTTT-TCTCC--CCCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCC
519 T-AAGGCGTTCGTTTTCT-TCCGGCCCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCC
*
4084 G-ACCTTTCTCCCCAAGTACCCCACTCCAGGCA-GCGGAATACGTACGTGCGTGTGTTCGAGATA
582 GAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATACGTACGTGTGTGTGTTCGAGATA
4147 GAAT-AAAA-AAAAT-ATCCGAAAAGAGGGGTGCAACACGAGGACTT-CCA-GAGGTCACCCATC
647 GAATAAAAAGAAAATAATCCGAAAAGA-GGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATC
4207 CTAGTACTACTCTCGCCC-AGCACGCTTAACTGCGGAGTTCTGATGGGATCCGTGCATTAGTGCT
711 CTAGTACTACTCTCGCCCAAGCAC-CTTAACTGCGGAGTTCTGATGGGATCCGTGCATTAGTGCT
4271 GGTATGATCGCACCCGTCATGCCTTGCGCCCTTTAATTTATTAAAGGCGTTCGTTTTCTTCCGGC
775 GGTATGATCGCACCCGTCATGCCTTGCGCCC-TTAATTTATT-AAGGCGTTC-TTTTCTTCCGGC
4336 CCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACG-CCCGAACCTTTCTCCCCAAGTA
837 CCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
4394 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAAT-AAAAGAAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
*
4458 TCCGAAAAAAGGGGTGCAACACGAGGACTTCCCA-GAGGTCACCCATCCTAGTACTACTCTCGCC
66 TCCGAAAAGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
4522 CAAGCACG-TT-ACTGC-GA-TTCTGATGGGATCCGGTGCATTAGTGCTGGTA--ATCGCACCCG
131 CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
4581 TCATGCCTTGCGCCCTTAATTTATTTAAA-GCGTTCGTTTTTCTT-CGGCCCGCACTAAAGGGAG
196 TCATGCCTT-CGCCCTTAATTTA-TTAAAGGCGTTCG-TTTTCTTCCGGCCCGCACTAAAGGGAG
4644 TCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGC-GAA
258 TCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAA
4708 TACGTACGTGTGCTGTGTTCGAGATAGAAT--AAA-AAAA-AATCCGAAAAAGA-GGTGCAACAC
323 TACGTACGTGTG-TGTGTTCGAGATAGAATAAAAAGAAAATAATCCGAAAAAGAGGGTGCAACAC
4768 GAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCCAAGCACGCTT-ACTGCGGAG
387 GAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCG-CCCAAGCACGCTTAACTGCGGAG
4832 TTCTGATGGGATCC-GTGCATTAGTGCTGGTATGATCGCACCC-TCATGCCTTGCGCCCTTAATT
451 TTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATT
*
4895 TATTAAGGCGTTCG-TTTCTTCCCCCGGCCC-TACTAAA-GGAGTCGCAAAATTCGGATTCTACG
516 TATTAAGGCGTTCGTTTTCTT---CCGGCCCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACG
4957 CCCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATACG-ACGTGTGCGTGTGTTC
578 CCCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATACGTACGTGT--GTGTGTTC
5021 GAGATAGAATAAAAAG-AAATAATCC-AAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCAC
641 GAGATAGAATAAAAAGAAAATAATCCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCAC
5084 CCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGA-TTCTGAT-GGATCCG-GCATTA
706 CCATCCTAGTACTACTCTCGCCCAAGCAC-CTTAACTGCGGAGTTCTGATGGGATCCGTGCATTA
5146 GTGCTGGTATGATCGCA-CCG-CATGCC-TGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTCC
770 GTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTATTAAGGCGTTC-TTTTCTTCC
5208 -GCCCGCACTAAAGGGAGTCGC-AAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
834 GGCCCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
5268 CCCCACTCCAGGCA-GC-GAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
5331 TCCGAAAAGA-GGG-GCAACACGAGGACTTCCCAGGA-GTC-CCCATCCTAGTACTACTCTCGCC
66 TCCGAAAAGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
5392 CAAGCACGCTTAACTGCGGAGTTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCC
131 CAAGCACGCTTAACTGCGGAG-TTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCC
5457 GTCATGCCTTGCGCCCTTAATTTATT-AAGGCGTTCGTTTTCTTCC-GCCCGCACTAAAGGGAGT
195 GTCATGCCTT-CGCCCTTAATTTATTAAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGT
5520 CGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTACCCCACTCCA-GCAGGCGGAAT
259 CGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAAT
*
5584 ACGTACGTGTGCGTGTTCGAGATAGAATAAAAAGAAAATAATCCGAAAAAGAGGGTGCAACACGA
324 ACGTACGTGTGTGTGTTCGAGATAGAATAAAAAGAAAATAATCCGAAAAAGAGGGTGCAACACGA
5649 GGACTT-CCA-GAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTC
389 GGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTC
5712 TGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTAT
454 TGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTA-
5777 TTAAAGGCGTTC-TTTTCTTCCGGCCCGCACT-AAGGGA-TCGC-AAATTCGGATTCTAC-CCCC
518 TT-AAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCC
5837 GAACCTTTCTCCCCAAGTACCCC-CTCCAGGCA---GGAATAC-TACGTGTGTGTGTTCGAGATA
582 GAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATACGTACGTGTGTGTGTTCGAGATA
5897 GAATAAAAAGAAAAT-ATCCGAAAAGAGGGTGCAACAC-AGGAC-TCCCA-GAGGTCA-CCATCC
647 GAATAAAAAGAAAATAATCCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCC
5957 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAG-GCT
712 TAGTACTACTCTCGCCCAAGCAC-CTTAACTGCGGAGTTCTGATGGGATCC-GTGCATTAGTGCT
6021 GGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTATTAAGGCGTTCGTTTTCTTTCC-GCC
775 GGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTATTAAGGCGTTC-TTTTC-TTCCGGCC
6085 CGCACTAAA-GGAGTCGCAAAATTCGGATTCTACGCCCC-AACCTTTCTCCCCAAGTA
838 CGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
6141 CCCCACTCCA-GCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
* *
6205 TCCGAAAAAGAGGGATGCAACACGA-GACTTCCCA-GAGGTCACCCATCCTATTACTACTCTCGC
66 TCCG-AAAAGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGC
6268 CCAAGCACGCTTAACTGC-GAGTTCTGATGGGATCC-GTGCATTAGTGCTGGTATGATCGCACCC
130 CCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCC
6331 GTCATGCCTT-GCCCTTAATTTATTAAAGGCG-TCGTTTTCTT-C-GCCCGCACT-AAGGGAGTC
195 GTCATGCCTTCGCCCTTAATTTATTAAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTC
*
6391 GCAAAATTCGGATTCTA--CTCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATA
260 GCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATA
*
6454 CGTAACGTGCGTGT-TTCGAGATAGAAT-AAAAG-AAATAATCCGAAAAAGA-GGTGCAACACGA
325 CGT-ACGTGTGTGTGTTCGAGATAGAATAAAAAGAAAATAATCCGAAAAAGAGGGTGCAACACGA
6515 GGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCG-CCAAGCA--CTTAACTGCGGA-TTC
389 GGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTC
6576 TGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACGCCGT-ATGCCTTGCGCCCTTAATTTA
454 TGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCAC-CCGTCATGCCTTGCGCCCTTAATTTA
*
6640 TTAAGGCGTTTGTTTTCTTTCCGGCCCGCACTAAA--G-GTCGCAAAATTCGGATTCTACGCCCC
518 TTAAGGCGTTCGTTTTC-TTCCGGCCCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCC
6702 GAACCTTTCT-CCCAAGTACCCCACTCCAGGCA-GCGGAATAC-TACGTGTGCGTGTGTTCGAGA
582 GAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATACGTACGTGT--GTGTGTTCGAGA
6764 TAGAAT-AAAAGAAAATAATCCGAAAAAGAGGGATGCAACACGAGGACTTCCCA-GAGGTCACCC
645 TAGAATAAAAAGAAAATAATCCG-AAAAGAGGG-TGCAACACGAGGACTTCCCAGGAGGTCACCC
6827 -TCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAG
708 ATCCTAGTACTACTCTCGCCCAAGCAC-CTTAACTGCGGAGTTCTGATGGGATCC-GTGCATTAG
6891 TGCTGGTATGATCGCA-CCGTCATGCCTTGCGCCCTTAATTTATTAAAGGCGTTCGTTTTC-TCC
771 TGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTATT-AAGGCGTTC-TTTTCTTCC
6954 GGCCCTGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCC-AGTA
834 GGCCC-GCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
7016 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
1 CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
7081 TCCGAAAA-AGAGGGTGCAACACGAGGACTTCCCA-G-GGTCACCCATCCTAGTACTACTCTCGC
66 TCCGAAAAGAG-GGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGC
7143 CCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCC-GTGCATTAGTGCTGGTATGATCGCA
130 CCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCA
Statistics
Matches: 6052, Mismatches: 46, Indels: 462
0.92 0.01 0.07
Matches are distributed among these distances:
862 8 0.00
863 12 0.00
864 103 0.02
865 41 0.01
866 18 0.00
867 83 0.01
868 128 0.02
869 114 0.02
870 207 0.03
871 179 0.03
872 242 0.04
873 476 0.08
874 603 0.10
875 617 0.10
876 402 0.07
877 333 0.06
878 287 0.05
879 284 0.05
880 176 0.03
881 159 0.03
882 130 0.02
883 158 0.03
884 157 0.03
885 121 0.02
886 123 0.02
887 191 0.03
888 363 0.06
889 198 0.03
890 97 0.02
891 29 0.00
892 11 0.00
893 2 0.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (895 bp):
CCCCACTCCAGGCAGGCGGAATACGTACGTGTGCGTGTGTTCGAGATAGAATAAAAAGAAAATAA
TCCGAAAAGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCC
CAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCG
TCATGCCTTCGCCCTTAATTTATTAAAGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCG
CAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATAC
GTACGTGTGTGTGTTCGAGATAGAATAAAAAGAAAATAATCCGAAAAAGAGGGTGCAACACGAGG
ACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTG
ATGGGATCCGGTGCATTAGTGCTGGTATGATCGCACCCGTCATGCCTTGCGCCCTTAATTTATTA
AGGCGTTCGTTTTCTTCCGGCCCGCACTAAAGGGAGTCGCAAAATTCGGATTCTACGCCCCGAAC
CTTTCTCCCCAAGTACCCCACTCCAGGCAGGCGGAATACGTACGTGTGTGTGTTCGAGATAGAAT
AAAAAGAAAATAATCCGAAAAGAGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGT
ACTACTCTCGCCCAAGCACCTTAACTGCGGAGTTCTGATGGGATCCGTGCATTAGTGCTGGTATG
ATCGCACCCGTCATGCCTTGCGCCCTTAATTTATTAAGGCGTTCTTTTCTTCCGGCCCGCACTAA
AGGGAGTCGCAAAATTCGGATTCTACGCCCCGAACCTTTCTCCCCAAGTA
Done.