Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012605.1 Corchorus olitorius cultivar O-4 contig12638, 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: 57646
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:2795 original size:11 final size:11
Alignment explanation
Indices: 2779--2809 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2769 GTTTCGATAT
2779 AATTAGAAATA
1 AATTAGAAATA
2790 AATTAGAAATA
1 AATTAGAAATA
*
2801 AATTCGAAA
1 AATTAGAAA
2810 AAAAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.10, T:0.26
Consensus pattern (11 bp):
AATTAGAAATA
Found at i:3535 original size:324 final size:321
Alignment explanation
Indices: 1641--8778 Score: 5896
Period size: 324 Copynumber: 22.0 Consensus size: 321
1631 TCGGATCGGC
* * * * *
1641 TTTTGACTAAAAACGCGTTTCGGGACCCCAGCTCAGTTTTGGATGGTTTTTG-GCAGAGAGACTC
1 TTTTGGCTAAAAACGCGTTTC-GGAGCCCAGCTCAATTTTGCATGATTTTTGAGCA-A-AGACTC
* * * * * * *
1705 CTTAAAATATCTATATTTATCC-AACAAAATCCCAGACACATTGGATTTAAGGGTTTGTTTTTAC
63 CTTGAAATATCTATATTCA-CCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTAC
* * * * ** *
1769 GAGCAT-TTAATCTTGTTTCAATATAATTAGAAATAAATTC-GAAACAAAATTAAAAAAATGATA
127 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAA-AAAAATGGAAAAACGATA
* * * * * * *
1832 TTATAA-CTGTG-ATAACCCTTTAAAT-TTTTTGGCGTTGAATTATATAGTTTTTCTGAGTATTT
191 TTAGAAGC-GTGAAAAACCC-TTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTG
* * * *
1894 TGGCAAAAAAAATTGAGGAAAAACTTTTCGGGTAAGTTTTTGGAAAAGTTTAGCCGAAATCGTGT
254 TGGC--AAAATATTGAGAAAAAAATTTTCGGGTCAG---TT-------TTTAGCCGAAATCGTGT
* *
1959 ATTAACCATCACGGT
307 ACTAACCATCACCGT
* * * *
1974 TTTTTGCTAAAAACGCGTTTCGG-TCCGCTAGCTCAGTTTTGCATGATTTTTG-GCAGAGACACT
1 TTTTGGCTAAAAACGCGTTTCGGAGCC-C-AGCTCAATTTTGCATGATTTTTGAGCA-A-AGACT
* * * * *
2037 CCTTGAAATATCAATATTCACCTAACCAAATGTCAGCCATAACAGATTTAAGGATTTGTTTTTAC
62 CCTTGAAATATCTATATTCACCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTAC
* * * *
2102 AAGCATCTCAATCTTGTTTCAATTTAATTAGAAATAAATTC-G-AAAAAAATGGAAAAAATGATA
127 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGG-AAAAACGATA
* * * * *
2165 TTATAAGCGTG-AAAACCCTTCAAAT-TTTTTGGCGTTGAATTGTAT-TGTTTTTCTGAGTATTT
191 TTAGAAGCGTGAAAAACCCTTC-AATCTTTTTGGCGTTGAATTATATAT-TTTTTATGACTATTG
* * * * *
2227 TGGCAAAAAAATTGAGGAGAAACTTTTCGGGTAAGTTTTTGCAAAAATTTAGCCGAAATCGTGTA
254 TGGC-AAAATATTGAGAAAAAAATTTTCGGGTCAG---TT-------TTTAGCCGAAATCGTGTA
2292 CT--CCATCACCGT
308 CTAACCATCACCGT
* *
2304 TTTTGGCTAAAAACGCGTTTCGGTGAG-CCAACTCAATTTTGAATGATTTTTG-GCAGAGAGACT
1 TTTTGGCTAAAAACGCGTTTC-G-GAGCCCAGCTCAATTTTGCATGATTTTTGAGCA-A-AGACT
* * * * *
2367 CTTTGAAATATCAATATTCACCTAACCAAATGTCAGCCATAACGGATTTAAGGATTTGTTTTTAC
62 CCTTGAAATATCTATATTCACCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTAC
* * ** ** *
2432 AAGCATCTGAATCTTGTTTCGATTTAATTGGAAATAAATT-ATAAAAAAAAAAGAAAACCGATAT
127 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGATAT
* * * * *
2496 TAGAAGCGTGAAAATCCCTTCAATCTTTTTGGCTTTGAATTACAAATTTTTTATGACTATTGCGG
192 TAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGTGG
* * ** * * *
2561 CAAAATACTAAGAAAAATTTTCTTCGGATCAGTTTTTAGCCGAAATCGTGTACTAACAATCACGG
257 CAAAATATTGAGAAAAAAATT-TTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACCG
2626 T
321 T
* * * * *
2627 TTTTGGCTAAAAACGTGTTTCGGGACCCCAACTCAGTTTTGGATGATTTTTG-GCAGAGAGACTC
1 TTTTGGCTAAAAACGCGTTTC-GGAGCCCAGCTCAATTTTGCATGATTTTTGAGCA-A-AGACTC
* * * * * *
2691 CTTAAAATATCTAAAATT-ATCC-AACAAAATCCCAGCCACATTGGATTTAAGGATTTGTTCTTA
63 CTTGAAATATCT-ATATTCA-CCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTA
* *
2754 CGAGCAT-TTAATCTTGTTTCGATATAATTAGAAATAAATTAGAAATAAATTC-GAAAAAAAATT
126 CGAGCATCTGAATCTTGTTTCG-----ATT-----T-AATTAGAAATAAATTCGGAAAAAAAATG
* * * ** * * * *
2817 GAAAAATGAAATTATAATTGTG-AAAGCCCTGCAAAT-TTTTAGGTGTTGAATTATATATTTTTT
180 GAAAAACGATATTAGAAGCGTGAAAAACCCTTC-AATCTTTTTGGCGTTGAATTATATATTTTTT
* * * * * * * *
2880 CTGAGTATTTTGGCAAAAAAAATTGAGGAGAAACTTTTCGGGTAAGTTTTTGCAAAAATTTAGCC
244 ATGACTATTGTGGC--AAAATATTGAGAAAAAAATTTTCGGGTCAG---TT-------TTTAGCC
2945 GAAATCGTGTACT--CCATCACCGT
297 GAAATCGTGTACTAACCATCACCGT
* * *
2968 TTTTGGCTAAAAACGCTTTTCGGTGAG-CCAACTCAATTTTGTATGATTTTTG-GCAGAGAGACT
1 TTTTGGCTAAAAACGCGTTTC-G-GAGCCCAGCTCAATTTTGCATGATTTTTGAGCA-A-AGACT
* * * * **
3031 CCTTGAAATATCAATATTCACCTAACCAAATGTCAGCCATAACAAATTTAAGGATTTGTTTTTAC
62 CCTTGAAATATCTATATTCACCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTAC
*** **
3096 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTATAAAAAAAAAAAAGAAAAACGATA
127 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATT-CGGAAAAAAAATGGAAAAACGATA
* * *
3161 TTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGTGTTGAATTAAATATTTTTTATGACCATTGTG
191 TTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGTG
* ** * * ***
3226 GCAAAATATGGAGAAAAAAATTTTCGGGTCAGTTTTTAGCTTAAATCATGTACTAACCGTCATAA
256 GCAAAATATTGAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACCG
3291 T
321 T
* *
3292 TTTTGGCTAAAAACGCGTTTC-GAACCTCGGCTCAATTTTGCATGATTTTCTGAGCAAAGACTCC
1 TTTTGGCTAAAAACGCGTTTCGGAGCC-CAGCTCAATTTTGCATGATTTT-TGAGCAAAGACTCC
* * * * * * * *
3356 TTGAAATAAATCTAGATTAATCGAA-TAGAATCTCAGCCACATTGGATATAAGAATTTGTTTTTA
64 TTGAAAT--ATCTATATTCACCTAACCA-AATCTCAGCCACATCGGATTTAAGGATTTGTTTTTA
* * ** * * * * *
3420 CGAGCATCTAAATCTTATTTCGATTTTGTTAGAAATTAATTCGGAGAAAATATGGATAAACAATA
126 CGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGATA
** * * *
3485 TTAGAAG-GATG-GCAAGCCTGTCAATCTTTTTGGCGTTGAAATATATATTTTTTTATGAATATT
191 TTAGAAGCG-TGAAAAACCCT-TCAATCTTTTTGGCGTTGAATTATATA-TTTTTTATGACTATT
* * * * * *
3548 -TTG-AAAAAATTGAGAAAAAAAAAACTTTTCGGGTTACTTTTTAGCATGAAATCATGTACTAAC
253 GTGGCAAAATATTGAG---AAAAAAA-TTTTCGGGTCAGTTTTTAGC-CGAAATCGTGTACTAAC
*
3611 CATTACCGT
313 CATCACCGT
* *
3620 TTTTGGCTAAAAACGCGTTTC-GATGCGCCAGCTCAATTTTGTATGATTTTTGA-CAGTGAGACT
1 TTTTGGCTAAAAACGCGTTTCGGA-GC-CCAGCTCAATTTTGCATGATTTTTGAGCA--AAGACT
* * ** *
3683 CCTTGAAATAT-TAATATTCACCTAACCAAATGTCAGTCTTAACGGATTTAAGGATTTGTTTTTA
62 CCTTGAAATATCT-ATATTCACCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTA
* * * * * * * *
3747 CGAGAATCTGAATTTTATTTCGATTTAGTAAGAAATTAATTCGGAAAAAAATATGGATAAACAAT
126 CGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAA-ATGGAAAAACGAT
* * * * * *
3812 ATTAGAAGCATGGAAGA-CCTGTCAATCTTTTTGGCGTTGAAATATTTATTTTTT-TCCGAATAT
190 ATTAGAAGCGTGAAAAACCCT-TCAATCTTTTTGGCGTTGAATTATATATTTTTTAT--GACTAT
* * * * * * *
3875 T-TTGCAAAAAATTGAGAAAAAAAGTTTTCGGGTTAGTTTTTAGCATGAAATCTTCTGCTAACCA
252 TGTGGCAAAATATTGAGAAAAAAA-TTTTCGGGTCAGTTTTTAGC-CGAAATCGTGTACTAACCA
3939 TCACCGT
315 TCACCGT
* ** * * * * * **
3946 TTTGGGCTAAAAACGCGTAACGGTGTGCCAACTCAGTTTTGTATGA-TTTTG-GCTGTGAGACTC
1 TTTTGGCTAAAAACGCGTTTCGGAG-CCCAGCTCAATTTTGCATGATTTTTGAGC--AAAGACTC
* * *
4009 CTTGAAATAT-TAATATTCACCTAACCAAATGTCAGCCATAACGGATTTAAGGATTTGTTTTTAC
63 CTTGAAATATCT-ATATTCACCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTAC
*
4073 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTC-G-ACAAAAA-GGAAAAACGATAT
127 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGATAT
** *
4135 TAGAAGCGTGAAAAACCCTTCAATCTTTTTGGTTTTGAATTATATATTTTTTATGACCATTGTGG
192 TAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGTGG
* * * **
4200 CAAAATATTGAGAACAAATTTTTCGAGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACAAT
257 CAAAATATTGAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACCGT
** * * *
4265 TTTTGGCTAAAAACGCAATCCGGAGACCCGGCTCAATTTTGCATGATTTTTGGAGCAAAGAATCC
1 TTTTGGCTAAAAACGCGTTTCGGAG-CCCAGCTCAATTTTGCATGATTTTT-GAGCAAAGACTCC
* * * * * * * ** *
4330 TTGAAATATATCTACATTAAACGAA-CAGAATCTCACCCACATTGGATATAAAAATTTGTTTTCA
64 TTG-AA-ATATCTATATTCACCTAACCA-AATCTCAGCCACATCGGATTTAAGGATTTGTTTTTA
* * * * * * *
4394 CGAGCATCTGAGTCTTATTTCGATTTAGTTAGAAATTAATTCGGAAAAAATATGGATAAACAATA
126 CGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGATA
* * * * * * ** *
4459 TTAGAAGCATG-GAAAGCATGTCAATCTCTTTGGCATTGAA--ATAT-TTTTTTCCGATTATT-T
191 TTAGAAGCGTGAAAAACCCT-TCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGT
* * * * * *
4519 TGCAAAAAATTGTGAGAAAAAAACTTTTCGGTTTAGTTTTTAGCCGAAATCGAGTACTAACTATC
255 GGCAAAATA-T-TGAGAAAAAAA-TTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATC
4584 ACCGT
317 ACCGT
* * * * *
4589 TTTTGGCTAAAAACGCGTTTCGGTGCGCCGGCTCAGTTATGCATGATATTTG-GCAGAGAGACTC
1 TTTTGGCTAAAAACGCGTTTCGGAGC-CCAGCTCAATTTTGCATGATTTTTGAGCA-A-AGACTC
* * * * * * *
4653 TTTGAAATATCAATATTCACCGAACCATATATCAGCCATAACGGATTTAAGGATTTGTTTTTACG
63 CTTGAAATATCTATATTCACCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTACG
* * **
4718 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATCAATT-AGAAAAAAAAACG-AAAACGATATT
128 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGATATT
* * * * *
4781 AGAAGCGTGAAAAATCCTTGAATCATTTTGGCGTTGAATTATATATTTTTTATGACTCTTGCGGC
193 AGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGTGGC
* * *
4846 AAAATATTGAG-AAAAAATTCTTCGAGTCAGTTTTCT-GCCGAAATCGTGTAATAACCATCACGG
258 AAAATATTGAGAAAAAAATT-TTCGGGTCAGTTTT-TAGCCGAAATCGTGTACTAACCATCACCG
4909 T
321 T
* * * * * * * **
4910 TTTTGGCTAAAATCGTGTTTCGGGACCCCAGCTTAGTTTTGGATAATTTTTG-GCTGAGGGACTC
1 TTTTGGCTAAAAACGCGTTTC-GGAGCCCAGCTCAATTTTGCATGATTTTTGAGC--AAAGACTC
* * * * * * *
4974 CTTCAAATATATATATTTATCC-AACAAAATCCCAGCCACATTGGATTTAAGGGTTTGTTTTTAC
63 CTTGAAATATCTATATTCA-CCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTAC
* * *
5038 GAGTAT-TGATTCTTGTTTCGATATAATTAGAAATAAATTC-G-AAAAAAATGGAAAAAACGATA
127 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGG-AAAAACGATA
* * * ** * *
5100 TTATAAGCGTG-AAAACCCTTCAATTTTTTTGGCGTTGAATTACATAGATTTTCTGAGTATTGTG
191 TTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGTG
* * *
5164 GCAAAAAAATTGAGAAAAAACTTTTCGGGTAAGTTTTTGGAAAATATTAGCCGAAATCGTGTACT
256 GC-AAAATATTGAGAAAAAAATTTTCGGGTCAG---TT------T-TTAGCCGAAATCGTGTACT
*
5229 AACTATCACCGT
310 AACCATCACCGT
* * * *
5241 TTTTGGCTAAAAACGCGTTTCGG-TCTGCCAGCTCAGTTTTACATGATTTTTG-GCAGAGACACT
1 TTTTGGCTAAAAACGCGTTTCGGAGC--CCAGCTCAATTTTGCATGATTTTTGAGCA-A-AGACT
* * * * * *
5304 CCTTGAAATTTCAATATTCACCTAACCAAATATCAGCCATAACGAATTTAAGGATTTGTTTTTAC
62 CCTTGAAATATCTATATTCACCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTAC
* * * * *
5369 AAGCATCTGAATCTTGTTGCGATTTAATTAGAAATAAATTCGAAAAAAAAAAAGGAAACACGATA
127 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCG-GAAAAAAAATGGAAAAACGATA
* *
5434 TTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGACCATTGTG
191 TTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGTG
* * * * **
5499 GCAAAATATTGAGAAAACAATTTTTGGGTCATTTTTTTGCCGAAATCGTGTACTAACCATCACAA
256 GCAAAATATTGAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACCG
5564 T
321 T
* * *
5565 TTTTGGCTAAAAACACGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTTTGAAGCAAAGACTCC
1 TTTTGGCTAAAAACGCGTTTCGGAG-CCCAGCTCAATTTTGCATGATTTTTG-AGCAAAGACTCC
* * * * * * *
5630 TTGAAATATATCTAGATTAATC-AAACAGAATCTCAGCCACATTGGATATAAGAATTTGTTTTTA
64 TTG-AA-ATATCTATATTCACCTAACCA-AATCTCAGCCACATCGGATTTAAGGATTTGTTTTTA
* * * * * * * *
5694 AGAGCATCTGAATCTTATTTCGATTTAGTTAGAAATTAATTCGGAGAAAATATGGATAAACAATA
126 CGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGATA
* * ** ** *
5759 TTAGAAGCATG-GAAAGTCTGTCAATCTTTTTGGCGTTGGAA-TATATATTTTTTCCGAATATT-
191 TTAGAAGCGTGAAAAACCCT-TCAATCTTTTTGGCGTT-GAATTATATATTTTTTATGACTATTG
* * * * * *
5821 TTGCAAAAAATTGAGAAAAAAACCTATTCGGTTCAGTTTTTAGCCAAAATCGTGTACTAATCATC
254 TGGCAAAATATTGAGAAAAAAA--TTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATC
*
5886 ATCGT
317 ACCGT
* * * * *
5891 TTTTGCCTAAAAACGCGTTTCGGTGCGCCAGCTCAATTTTGCATGATTTTTGGTAG-AGAGAGTT
1 TTTTGGCTAAAAACGCGTTTCGGAGC-CCAGCTCAATTTTGCATGATTTTT-G-AGCAAAGACTC
* * * * *
5955 CTTGAAATATCAATATTCACCTAACCAAATGTCAGCAATAGCGGATTTAAGGATTTGTTTTTACG
63 CTTGAAATATCTATATTCACCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTACG
* * *
6020 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATT-AGAAAAAAAAAGGAAAAACGACATT
128 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGATATT
6084 AGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGTGGC
193 AGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGTGGC
* * *
6149 AAAATATTGAG-AAAAAATTCTTCGGGTAAGTTTTTAGCCGAAATTGTGTA-T---CATCACGGT
258 AAAATATTGAGAAAAAAATT-TTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACCGT
* * * *
6209 TTTTGGCTAAAAACACGTTTCAGGACCCCAGCT-AAGTTTTGGATGATTTTTG-GCAGAGGGACT
1 TTTTGGCTAAAAACGCGTTTC-GGAGCCCAGCTCAA-TTTTGCATGATTTTTGAGCA-A-AGACT
* * * * * *
6272 CCTTAAAATAACTATATTTATCC-AACAAAATCCCAGCCACATTGGATTTAAGGATTTGTTTTTA
62 CCTTGAAATATCTATATTCA-CCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTA
* * * ** *
6336 CGAGCAT-TGAATTTTGTTTTGATATAATTAGAAATAAATTC-G-AAAAAAATTTAAAAATGATA
126 CGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGATA
* ** * * * * *
6398 TTATAATTGTG-AAAACCCTTCAAAT-TTTTTGGTGTTGAATTATATAATTTTTCTGAGTATTTT
191 TTAGAAGCGTGAAAAACCCTTC-AATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGT
* * * * * *
6461 GGGGAAAAAATTGAGGAGAAACTTTTCGGGTAAGTTTTTACAAAATTTTAGCCGAAATCGTGTAC
255 -GGCAAAATATTGAGAAAAAAATTTTCGGGTCAG----T------TTTTAGCCGAAATCGTGTAC
*
6526 TAACCATCATCGT
309 TAACCATCACCGT
* * * * *
6539 TTGTGGCTAAAAACGCGTTTCGGTGTGCTAGCTC------G--TGA----TG-GCAATGATCTCC
1 TTTTGGCTAAAAACGCGTTTCGGAG-CCCAGCTCAATTTTGCATGATTTTTGAGCAAAGA-CTCC
* * *
6591 ---AAA-A---ATATTCA-CTAACCAAATGTCAGCCATAACGGATTTAAGGATTTGTTTTTACGA
64 TTGAAATATCTATATTCACCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTACGA
* * *
6648 GCATCTGAATCTTGTTTCGATTTAATTAAAAATAAATTCGAAAAAAAAAT-GAAATACGATATTA
129 GCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGATATTA
* * * *
6712 GAAGCGTGAAAAACACTTCAATCTCTTTGGTGTTGAATTATATATTTTTTATGACCATTGTGGCA
194 GAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGTGGCA
* * **
6777 AAATATTGAG-GAAAAATTTTCGGGTTCAGTTTTTAGCCGAAATCGTGTAATAACCATCACAAT
259 AAATATTGAGAAAAAAATTTTCGGG-TCAGTTTTTAGCCGAAATCGTGTACTAACCATCACCGT
* *
6840 TTTGGGCTAAAAACGCGTTCCGGAGACCC-GACTCAATTTTGCATGATTTTTGGAGCAAAGACTC
1 TTTTGGCTAAAAACGCGTTTCGGAG-CCCAG-CTCAATTTTGCATGATTTTT-GAGCAAAGACTC
* * * * * * *
6904 CTTGAAGTATATCTAGATTAATCGAA-CAGAATCTCAGCCACATTGGATATAAGAATTTGTTTTT
63 CTTGAA--ATATCTATATTCACCTAACCA-AATCTCAGCCACATCGGATTTAAGGATTTGTTTTT
* * * * * *
6968 ACGAGCATCTGAATCTTATTTCGATTTAGTTAGAAATTAATTCGGAAAAAATATGGATAAACAAT
125 ACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGAT
* * * * ** *
7033 ATTAGAAGCATG-GAAAGCCTGTCAATCTTTTTGGCGTTGAAATATATATTTTTTCCGAATATT-
190 ATTAGAAGCGTGAAAAACCCT-TCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTG
* * *
7096 TTGCAAAAAATTGAGAAAAAAAAACTTTTCGGGTTAGTTTTTAGCCGAAATCGTGTACTAACCAT
254 TGGCAAAATATTGAG--AAAAAAA-TTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCAT
7161 CACCGT
316 CACCGT
* * ** * *
7167 TTTTGACTAAAAACGCGTTTCGGTGCGCTGGCTCAGTTTTGCATGATATTTG-GCAGAGAGACTC
1 TTTTGGCTAAAAACGCGTTTCGGAGC-CCAGCTCAATTTTGCATGATTTTTGAGCA-A-AGACTC
* * * * * *
7231 TTTGAAATATCAATATTCACCTAACCAAATGTCAGCCATAAT-GTATTTAGGGATTTGTTTTTAC
63 CTTGAAATATCTATATTCACCTAACCAAATCTCAGCCA-CATCGGATTTAAGGATTTGTTTTTAC
* * ***
7295 GAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATT-AGAAAAAAAAACAAAAAACGATAT
127 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGATAT
* * *
7359 TAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCATTGAAATATATATTTTTTATGACTATTGTGT
192 TAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGTGG
* * * ** *
7424 CAAAATATTGAGAAAAAAATTTTCGCGTCAATTTTTAGCCGAAATCGTGTACAAATAATCACGGT
257 CAAAATATTGAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACCGT
* * * * * * *
7489 TTTTGGCTAAAAACGCGTTTTGGGACCCCAACTTAGTTTTGGATGATTTTTG-GCAGAGACTCCT
1 TTTTGGCTAAAAACGCG-TTTCGGAGCCCAGCTCAATTTTGCATGATTTTTGAGCAAAGACTCCT
* * * * * * * *
7553 T-AAATTATCTATATTTATCAAACAAAATCCCAACCACATTGGATTGAAGGATTTGTTTTTACGA
65 TGAAA-TATCTATATTCACCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTACGA
* *
7617 GCAT-TGAATCTAGTTTCGATATAATTAGAAATAAATTC-G--AAAAAATGGAAAAAACGATATT
129 GCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGG-AAAAACGATATT
* * * * * *
7678 ATAATCGTG-AAAACCCTTCAAT-TTTTTGGGTGTTGAATTATATAGTTTTTCTGAGTATTGTGG
193 AGAAGCGTGAAAAACCCTTCAATCTTTTT-GGCGTTGAATTATATATTTTTTATGACTATTGTGG
* * * * * *
7741 TAAAAAAATTGAGGAAAAACTTTTCGGGTAAGCTTTCGCAAAATTTTAGCCGAAATTGTGTACTA
257 -CAAAATATTGAGAAAAAAATTTTCGGGTCAG---T-------TTTTAGCCGAAATCGTGTACTA
*
7806 ACCATGA-CGATT
311 ACCATCACCG--T
* * * *
7818 TTTTGGCTAAAAAC-CCTTTCTGAAGCCCGGCTCAATTTTGCATGATTTTTGGTGCAAAGACTCC
1 TTTTGGCTAAAAACGCGTTTC-GGAGCCCAGCTCAATTTTGCATGATTTTT-GAGCAAAGACTCC
* * * * * * * ** * * *
7882 TTGAACTATCCACATTTATCGACCCAAATCTCAGCCGTATTGGATATAAGGATTAGTTTTTACGA
64 TTGAAATATCTATATTCACCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTACGA
* * * * * *
7947 GCATCTAAATATTGTTTCGATTTAATTAGAAATTAATT-TG--AAAAAATAGAAAAATGATATTA
129 GCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGATATTA
* * * * * * * * * *
8009 AAAGCATG-AAAACCCGTCAATCATTTTGGCGTAGAAATACATATTTTTTTCTGAATATT-TTGC
194 GAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATA-TTTTTTATGACTATTGTGGC
* * * * *
8072 AAAACATTAATAAAAAAAACTTTTCAGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACAG
258 AAAATATTGA-GAAAAAAA-TTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACCG
8137 T
321 T
* * * * * *
8138 TTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGTATGATTTTTTGTGCAAAAAATCC
1 TTTTGGCTAAAAACGCGTTTCGGAG-CCCAGCTCAATTTTGCATGA-TTTTTGAGCAAAGACTCC
* * * * * * *
8203 TTGAAATATATCTAGATTAATC-AAGACAGAATCTCAGCCACATTGGATATAAGAATTTGTTTTT
64 TTG-AA-ATATCTATATTCACCTAA-CCA-AATCTCAGCCACATCGGATTTAAGGATTTGTTTTT
* * * * * * *
8267 ACGAGCAACTGAATCTTATTTCGATTTAGTTAGAAATTAATTCGGAAAAAATATGGATAAACAAT
125 ACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGAT
* * * * ** * *
8332 ACTAGAAGCTTGGAAAA-CCTGTCAATCTTTTTGGCGTTGAAATATATA-TTTTTCCGAATATTT
190 ATTAGAAGCGTGAAAAACCCT-TCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTG
** * * *
8395 TGTAAAAAAATTGATAAAAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATTGTGTACTAACCATC
254 TGGCAAAATATTGA-GAAAAAAA-TTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATC
8460 ACCGT
317 ACCGT
* * * * *
8465 TTTTTGCTAAAAACGTGTTTCGGTGCGCCAGCTCAGTTTTGCATGATTTTTG-GCGGAGAGACTC
1 TTTTGGCTAAAAACGCGTTTCGGAGC-CCAGCTCAATTTTGCATGATTTTTGAGC--AAAGACTC
* * * * * * *
8529 CTTGAAATATCAATATTCACCTAACCAATTGTCAGTCATAACGGATTTAAGGATTTGGTTTTACG
63 CTTGAAATATCTATATTCACCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTACG
* * * *
8594 AGCATCTGAATCCTATTTCGATTTAATTAGAAATAAATTC-GAGAAAAAAAGGGAAATACGATAT
128 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGA-AAAAAAATGGAAAAACGATAT
*
8658 TGGAAGCGTGAAAAACCCTTCAATC-TTTTGGCGTTGAATTATATATTTTTTATGACTATTGTGG
192 TAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGTGG
* ***
8722 CAAGATATTGA-AAAAAAATTCTTCAAATCAGTTTTTAGCCGAAATCGTGTA-TAACCA
257 CAAAATATTGAGAAAAAAATT-TTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCA
8779 AAATTTTCAT
Statistics
Matches: 5535, Mismatches: 980, Indels: 592
0.78 0.14 0.08
Matches are distributed among these distances:
300 1 0.00
301 54 0.01
307 2 0.00
308 1 0.00
309 45 0.01
310 47 0.01
311 34 0.01
312 49 0.01
313 2 0.00
314 8 0.00
315 50 0.01
316 56 0.01
317 94 0.02
318 153 0.03
319 104 0.02
320 222 0.04
321 370 0.07
322 381 0.07
323 324 0.06
324 743 0.13
325 483 0.09
326 315 0.06
327 342 0.06
328 197 0.04
329 77 0.01
330 342 0.06
331 267 0.05
332 171 0.03
333 250 0.05
334 133 0.02
335 58 0.01
336 2 0.00
337 3 0.00
340 6 0.00
341 114 0.02
342 15 0.00
343 20 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (321 bp):
TTTTGGCTAAAAACGCGTTTCGGAGCCCAGCTCAATTTTGCATGATTTTTGAGCAAAGACTCCTT
GAAATATCTATATTCACCTAACCAAATCTCAGCCACATCGGATTTAAGGATTTGTTTTTACGAGC
ATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAATGGAAAAACGATATTAGA
AGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGACTATTGTGGCAAA
ATATTGAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACCGT
Found at i:3770 original size:652 final size:647
Alignment explanation
Indices: 1641--8717 Score: 2809
Period size: 652 Copynumber: 10.9 Consensus size: 647
1631 TCGGATCGGC
* * * * * *
1641 TTTTGACTAAAAACGCGTTTCGG-GACCCCAGCTCAGTTTTGGATGGTTTTTGGCAGAGAGACTC
1 TTTTGGCTAAAAACGCGTTTCGGTGA-GCCAACTCAATTTTGTATGATTTTTGGCAGAGAGACTC
* * * * ** * * ** *
1705 CTTAAAATATCTATATTTATCC-AACAAAATCCCAGACACATTGGATTTAAGGGTTTGTTTTTAC
65 CTTGAAATATCAATATTCA-CCTAACCAAATGTCAGCCATAACGGATTTAAGGATTTGTTTTTAC
* * * ** ** *
1769 GAGCAT-TTAATCTTGTTTCAATATAATTAGAAATAAATTCGAAACAAAATTAA-AAAAATGATA
129 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTATAAA-AAAAAAAAGAAAAACGATA
* * * * * * * * *
1832 TTATAA-CTGTG-ATAACCCTTTAAAT-TTTTTGGCGTTGAATTATATAGTTTTTCTGAGTATTT
193 TTAGAAGC-GTGAAAAACCC-TTCAATCTTTTTGGTGTTGAATTAAATATTTTTTATGACTATTG
* * * * * *
1894 TGGCAAAAAAAATTGAGGAAAAACTTTTCGGGTAAGTTTTTGGAAAAGTTTAGCCGAAATCGTGT
256 TGGC--AAAATA-TGAGAAAAAAATTTTCGGGTCAG---TT-------TTTAGCTGAAATCATGT
* * * * * * *
1959 ATTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGG-TCCGCTAGCTCAGTTTTGCATGATTT
308 ACTAACCATCACAGTTTTTGGCTAAAAACGCGTTTCGGAACC-CCAACTCAATTTTGCATGATTT
* * * * * ** * *** *
2023 TTGGCAGAGACACTCCTTGAAATATC-AATATTCA-CCTAACCAAATGTCAGCCATAACAGATTT
372 TTGGCAGAGAGACTCCTTAAAAAATCTAAAATT-ATCC-AACAAAATCCCAGCCACATTGGATAT
* * * * *
2086 AAGGATTTGTTTTTACAAGCATCTCAATCTTGTTTC-A-AT-TTA-ATTAGAAATAAATTCG-AA
435 AAGAATTTGTTCTTACGAGCAT-TAAATCTTATTTCGATATATTAGATTAGAAATAAATTCGAAA
* * * ** * * * * *
2146 AAAAATGGAAAAAATGATATTATAAGCGTGAAAACCCTTCAAATTTTTTGGCGTTGAATTGTAT-
499 AAAAATGG-AAAAATCAAATTAGAAATGTGAAAGCCCTGCAAATTTTTAGGCGTTGAAATATATA
* * * * *
2210 TGTTTTTCTGAGTATTTTGGCAAAAAAATTGAGGAGAAACTTTTCGGGTAAGTTTTTGCAAAAAT
563 T-TTTTTATGAATATTTTGG-AAAAAAATTGAGAAAAAACTTTTCGGGTAACTTTTTGC---AA-
2275 TTAGCCGAAATCGTGTACTCCATCACCGT
622 TT---CGAAATCGTGTACTCCATCACCGT
* *
2304 TTTTGGCTAAAAACGCGTTTCGGTGAGCCAACTCAATTTTGAATGATTTTTGGCAGAGAGACTCT
1 TTTTGGCTAAAAACGCGTTTCGGTGAGCCAACTCAATTTTGTATGATTTTTGGCAGAGAGACTCC
*
2369 TTGAAATATCAATATTCACCTAACCAAATGTCAGCCATAACGGATTTAAGGATTTGTTTTTACAA
66 TTGAAATATCAATATTCACCTAACCAAATGTCAGCCATAACGGATTTAAGGATTTGTTTTTACGA
* *
2434 GCATCTGAATCTTGTTTCGATTTAATTGGAAATAAATTAT-AAAAAAAAAAGAAAACCGATATTA
131 GCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTATAAAAAAAAAAAGAAAAACGATATTA
* *
2498 GAAGCGTGAAAATCCCTTCAATCTTTTTGGCT-TTGAATTACAA-ATTTTTTATGACTATTGCGG
196 GAAGCGTGAAAAACCCTTCAATCTTTTTGG-TGTTGAATTA-AATATTTTTTATGACTATTGTGG
* ** * * * * *
2561 CAAAATACTAAGAAAAATTTTCTTCGGATCAGTTTTTAGCCGAAATCGTGTACTAACAATCACGG
259 CAAAATA-TGAGAAAAAAATT-TTCGGGTCAGTTTTTAGCTGAAATCATGTACTAACCATCACAG
* * * *
2626 TTTTTGGCTAAAAACGTGTTTCGGGACCCCAACTCAGTTTTGGATGATTTTTGGCAGAGAGACTC
322 TTTTTGGCTAAAAACGCGTTTCGGAACCCCAACTCAATTTTGCATGATTTTTGGCAGAGAGACTC
* * *
2691 CTTAAAATATCTAAAATTATCCAACAAAATCCCAGCCACATTGGATTTAAGGATTTGTTCTTACG
387 CTTAAAAAATCTAAAATTATCCAACAAAATCCCAGCCACATTGGATATAAGAATTTGTTCTTACG
* * *
2756 AGCATTTAATCTTGTTTCGATATAATTAGAAATAAATTAGAAATAAATTCGAAAAAAAATTGAAA
452 AGCATTAAATCTTATTTCGATAT-ATTAG------ATTAGAAATAAATTCGAAAAAAAATGGAAA
* * * * * * *
2821 AATGAAATTATAATTGTGAAAGCCCTGCAAATTTTTAGGTGTTGAATTATATATTTTTTCTGAGT
510 AATCAAATTAGAAATGTGAAAGCCCTGCAAATTTTTAGGCGTTGAAATATATATTTTTTATGAAT
* * *
2886 ATTTTGGCAAAAAAAATTGAGGAGAAACTTTTCGGGTAAGTTTTTGCAAAAATTTAGCCGAAATC
575 ATTTTGG--AAAAAAATTGAGAAAAAACTTTTCGGGTAACTTTTTGC---AA-TT---CGAAATC
2951 GTGTACTCCATCACCGT
631 GTGTACTCCATCACCGT
*
2968 TTTTGGCTAAAAACGCTTTTCGGTGAGCCAACTCAATTTTGTATGATTTTTGGCAGAGAGACTCC
1 TTTTGGCTAAAAACGCGTTTCGGTGAGCCAACTCAATTTTGTATGATTTTTGGCAGAGAGACTCC
**
3033 TTGAAATATCAATATTCACCTAACCAAATGTCAGCCATAACAAATTTAAGGATTTGTTTTTACGA
66 TTGAAATATCAATATTCACCTAACCAAATGTCAGCCATAACGGATTTAAGGATTTGTTTTTACGA
3098 GCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTATAAAAAAAAAAAAGAAAAACGATATT
131 GCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTAT-AAAAAAAAAAAGAAAAACGATATT
*
3163 AGAAGCGTGAAAAACCCTTCAATCTTTTTGGTGTTGAATTAAATATTTTTTATGACCATTGTGGC
195 AGAAGCGTGAAAAACCCTTCAATCTTTTTGGTGTTGAATTAAATATTTTTTATGACTATTGTGGC
* * * *
3228 AAAATATGGAGAAAAAAATTTTCGGGTCAGTTTTTAGCTTAAATCATGTACTAACCGTCATAATT
260 AAAATAT-GAGAAAAAAATTTTCGGGTCAGTTTTTAGCTGAAATCATGTACTAACCATCACAGTT
* **
3293 TTTGGCTAAAAACGCGTTTC-GAACCTCGGCTCAATTTTGCATGATTTTCTGAGCA-A-AGACTC
324 TTTGGCTAAAAACGCGTTTCGGAACCCCAACTCAATTTTGCATGATTTT-TG-GCAGAGAGACTC
* * * * * *
3355 CTTGAAATAAATCT-AGATTAATCGAATAGAATCTCAGCCACATTGGATATAAGAATTTGTTTTT
387 CTT-AAA-AAATCTAAAATT-ATCCAACAAAATCCCAGCCACATTGGATATAAGAATTTGTTCTT
* * * *
3419 ACGAGCATCTAAATCTTATTTCGAT-T-TT-G-TTAGAAATTAATTCGGAGAAAATATGGATAAA
449 ACGAGCAT-TAAATCTTATTTCGATATATTAGATTAGAAATAAATTC-GAAAAAAAATGGAAAAA
* *
3480 -CAATATTAGAAGGATG-GCAAG-CCTGTC-AATCTTTTTGGCGTTGAAATATATATTTTTTTAT
512 TCAA-ATTAGAA--ATGTGAAAGCCCTG-CAAAT-TTTTAGGCGTTGAAATATATA-TTTTTTAT
*
3541 GAATATTTT-G-AAAAAATTGAGAAAAAAAAAACTTTTCGGGTTACTTTTTAGC-A-T-GAAATC
571 GAATATTTTGGAAAAAAATTGAG----AAAAAACTTTTCGGGTAACTTTTT-GCAATTCGAAATC
* *
3601 ATGTACTAACCATTACCGT
631 GTGTACT--CCATCACCGT
* * * * *
3620 TTTTGGCTAAAAACGCGTTTCGATGCGCCAGCTCAATTTTGTATGATTTTTGACAGTGAGACTCC
1 TTTTGGCTAAAAACGCGTTTCGGTGAGCCAACTCAATTTTGTATGATTTTTGGCAGAGAGACTCC
* * *
3685 TTGAAATATTAATATTCACCTAACCAAATGTCAGTCTTAACGGATTTAAGGATTTGTTTTTACGA
66 TTGAAATATCAATATTCACCTAACCAAATGTCAGCCATAACGGATTTAAGGATTTGTTTTTACGA
* * * * * * ** * ** * *
3750 GAATCTGAATTTTATTTCGATTTAGTAAGAAATTAATTCGGAAAAAAATATGGATAAACAATATT
131 GCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATT-ATAAAAAAAAAAAGAAAAACGATATT
* * * * * ** *
3815 AGAAGCATGGAAGA-CCTGTCAATCTTTTTGGCGTTGAAATATTTATTTTTT-TCCGAATATT-T
195 AGAAGCGTGAAAAACCCT-TCAATCTTTTTGGTGTTGAATTAAATATTTTTTAT--GACTATTGT
* * * * * *
3877 TGCAAAAAATTGAGAAAAAAAGTTTTCGGGTTAGTTTTTAGCATGAAATCTTCTGCTAACCATCA
257 GGCAAAATA-TGAGAAAAAAA-TTTTCGGGTCAGTTTTTAGC-TGAAATCATGTACTAACCATCA
* * ** **** * * * *
3942 CCGTTTTGGGCTAAAAACGCGTAACGGTGTGCCAACTCAGTTTTGTATGA-TTTTGGCTGTGAGA
319 CAGTTTTTGGCTAAAAACGCGTTTCGGAACCCCAACTCAATTTTGCATGATTTTTGGCAGAGAGA
* * * * ** * ** * * *
4006 CTCCTTGAAATAT-TAATATTCA-CCTAACCAAATGTCAGCCATAACGGATTTAAGGATTTGTTT
384 CTCCTTAAAAAATCTAAAATT-ATCC-AACAAAATCCCAGCCACATTGGATATAAGAATTTGTTC
* * *
4069 TTACGAGCATCTGAATCTTGTTTCG--AT-TTA-ATTAGAAATAAATTCG-ACAAAAA-GGAAAA
447 TTACGAGCAT-TAAATCTTATTTCGATATATTAGATTAGAAATAAATTCGAAAAAAAATGGAAAA
* ** * * * ** *
4128 A-CGATATTAGAAGCGTGAAAAACCCTTC-AATCTTTTTGGTTTTGAATTATATATTTTTTATGA
511 ATC-AAATTAGAAATGTG-AAAGCCCTGCAAAT-TTTTAGGCGTTGAAATATATATTTTTTATGA
** * * * * * * * *
4191 CCATTGTGGCAAAATATTGAGAACAAATTTTTCGAGTCAGTTTTTAGC----CGAAATCGTGTAC
573 ATATTTTGGAAAAAAATTGAGAAAAAACTTTTCGGGTAACTTTTT-GCAATTCGAAATCGTGTAC
**
4252 TAACCATCACAAT
637 T--CCATCACCGT
** * * * ** * * *
4265 TTTTGGCTAAAAACGCAATCCGGAGACCCGGCTCAATTTTGCATGATTTTTGG-AGCAAAGAATC
1 TTTTGGCTAAAAACGCGTTTCGGTGAGCCAACTCAATTTTGTATGATTTTTGGCAG-AGAGACTC
* * * * * * * * ** * ** *
4329 CTTGAAATATATCTACATTAAACGAA-CAGAATCTCACCCACATTGGATATAAAAATTTGTTTTC
65 CTTG-AA-ATATCAATATTCACCTAACCA-AATGTCAGCCATAACGGATTTAAGGATTTGTTTTT
* * * * *** * ** * *
4393 ACGAGCATCTGAGTCTTATTTCGATTTAGTTAGAAATTAATTCGGAAAAAATATGGATAAACAAT
127 ACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTATAAAAAAAAAAAGAAAAACGAT
* * * * * ** * ** *
4458 ATTAGAAGCATG-GAAAGCATGTCAATCTCTTTGGCATTGAA--ATAT-TTTTTTCCGATTATT-
192 ATTAGAAGCGTGAAAAACCCT-TCAATCTTTTTGGTGTTGAATTAAATATTTTTTATGACTATTG
* * * * * *
4518 TTGCAAAAAATTGTGAGAAAAAAACTTTTCGGTTTAGTTTTTAGCCGAAATCGA-GTACTAACTA
256 TGGC--AAAA-TATGAGAAAAAAA-TTTTCGGGTCAGTTTTTAGCTGAAATC-ATGTACTAACCA
* ** * ** * * *
4582 TCACCGTTTTTGGCTAAAAACGCGTTTCGGTGCGCCGGCTCAGTTATGCATGATATTTGGCAGAG
316 TCACAGTTTTTGGCTAAAAACGCGTTTCGGAACCCCAACTCAATTTTGCATGATTTTTGGCAGAG
* * * * * * ** * ** * *
4647 AGACTCTTTGAAATATC-AATATTCA-CCGAACCATATATCAGCCATAACGGATTTAAGGATTTG
381 AGACTCCTTAAAAAATCTAAAATT-ATCC-AACAAAATCCCAGCCACATTGGATATAAGAATTTG
* * * * * **
4710 TTTTTACGAGCATCTGAATCTTGTTTCG--AT-TTA-ATTAGAAATCAATTAGAAAAAAAAACG-
444 TTCTTACGAGCAT-TAAATCTTATTTCGATATATTAGATTAGAAATAAATTCGAAAAAAAATGGA
* ** * * *
4770 AAAA-CGATATTAGAAGCGTGAAAAATCCTTG--AATCATTTT-GGCGTTGAATTATATATTTTT
508 AAAATC-AAATTAGAAATGTG--AAAGCCCTGCAAAT--TTTTAGGCGTTGAAATATATATTTTT
* * ** * * * * *
4831 TATGACTCTTGCGGCAAAATATTGAGAAAAAA-TTCTTCGAGTCAGTTTTCTGC----CGAAATC
568 TATGAATATTTTGGAAAAAAATTGAGAAAAAACTT-TTCGGGTAACTTTT-TGCAATTCGAAATC
* *
4891 GTGTAATAACCATCACGGT
631 GTGTACT--CCATCACCGT
* * * * * * * * * *
4910 TTTTGGCTAAAATCGTGTTTCGG-GACCCCAGCTTAGTTTTGGATAATTTTTGGCTGAGGGACTC
1 TTTTGGCTAAAAACGCGTTTCGGTGA-GCCAACTCAATTTTGTATGATTTTTGGCAGAGAGACTC
* * * ** * ** *
4974 CTTCAAATAT-ATATATTTATCC-AACAAAATCCCAGCCACATTGGATTTAAGGGTTTGTTTTTA
65 CTTGAAATATCA-ATATTCA-CCTAACCAAATGTCAGCCATAACGGATTTAAGGATTTGTTTTTA
* * * ** ***
5037 CGAGTAT-TGATTCTTGTTTCGATATAATTAGAAATAAATTCGAAAAAAATGGA-AAAAACGATA
128 CGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTATAAAAAAAAAAAGAAAAACGATA
* * * * ** * *
5100 TTATAAGCGTG-AAAACCCTTCAATTTTTTTGGCGTTGAATTACATAGATTTTCTGAGTATTGTG
193 TTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGTGTTGAATTAAATATTTTTTATGACTATTGTG
* * * * *
5164 GCAAAAAAATTGAGAAAAAACTTTTCGGGTAAGTTTTTGGAAAATATTAGCCGAAATCGTGTACT
258 GC-AAAATA-TGAGAAAAAAATTTTCGGGTCAG---TT------T-TTAGCTGAAATCATGTACT
* * * * * * *
5229 AACTATCACCGTTTTTGGCTAAAAACGCGTTTCGG-TCTGCCAGCTCAGTTTTACATGATTTTTG
311 AACCATCACAGTTTTTGGCTAAAAACGCGTTTCGGAAC-CCCAACTCAATTTTGCATGATTTTTG
* * ** * * ** * ** * *
5293 GCAGAGACACTCCTTGAAATTTC-AATATTCA-CCTAACCAAATATCAGCCATAACGAATTTAAG
375 GCAGAGAGACTCCTTAAAAAATCTAAAATT-ATCC-AACAAAATCCCAGCCACATTGGATATAAG
* * * * * *
5356 GATTTGTTTTTACAAGCATCTGAATCTTGTTGCG--AT-TTA-ATTAGAAATAAATTCGAAAAAA
438 AATTTGTTCTTACGAGCAT-TAAATCTTATTTCGATATATTAGATTAGAAATAAATTCG--AAAA
* * * ** * * * *
5417 AAAAAGGAAACA-CGATATTAGAAGCGTGAAAAACCCTTC-AATCTTTTTGGCGTTGAATTATAT
500 AAAATGGAAAAATC-AAATTAGAAATGTG-AAAGCCCTGCAAAT-TTTTAGGCGTTGAAATATAT
* ** * * * * **
5480 ATTTTTTCTGACCATTGTGGCAAAATATTGAGAAAACAA-TTTTTGGGTCATTTTTTTGC----C
562 ATTTTTTATGAATATTTTGGAAAAAAATTGAGAAAA-AACTTTTCGGGT-AACTTTTTGCAATTC
**
5540 GAAATCGTGTACTAACCATCACAAT
625 GAAATCGTGTACT--CCATCACCGT
* * * ** ** *
5565 TTTTGGCTAAAAACACGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTTTGAAGCA-A-AGACT
1 TTTTGGCTAAAAACGCGTTTCGGTGAGCCAACTCAATTTTGTATGATTTTTG--GCAGAGAGACT
* * * * * * * ** * *
5628 CCTTGAAATATATCTAGATTAATC-AAACAGAATCTCAGCCACATTGGATATAAGAATTTGTTTT
64 CCTTG-AA-ATATCAATATTCACCTAACCA-AATGTCAGCCATAACGGATTTAAGGATTTGTTTT
* * * * *** * * ** * *
5692 TAAGAGCATCTGAATCTTATTTCGATTTAGTTAGAAATTAATTCGGAGAAAATATGGATAAACAA
126 TACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTATAAAAAAAAAAAGAAAAACGA
* * ** * * ** *
5757 TATTAGAAGCATG-GAAAGTCTGTCAATCTTTTTGGCGTTGGAA-TATATATTTTTTCCGAATAT
191 TATTAGAAGCGTGAAAAACCCT-TCAATCTTTTTGGTGTT-GAATTAAATATTTTTTATGACTAT
* * * * ** * *
5820 T-TTGCAAAAAATTGAGAAAAAAACCTATTCGGTTCAGTTTTTAGCCAAAATCGTGTACTAATCA
254 TGTGGCAAAATA-TGAGAAAAAAA--TTTTCGGGTCAGTTTTTAGCTGAAATCATGTACTAACCA
* ** * * *
5884 TCATC-GTTTTTGCCTAAAAACGCGTTTCGGTGCGCCAGCTCAATTTTGCATGATTTTTGGTAGA
316 TCA-CAGTTTTTGGCTAAAAACGCGTTTCGGAACCCCAACTCAATTTTGCATGATTTTTGGCAGA
* * * * * * ** * * ** * *
5948 GAGAGTTCTTGAAATATC-AATATTCA-CCTAACCAAATGTCAGCAATAGCGGATTTAAGGATTT
380 GAGACTCCTTAAAAAATCTAAAATT-ATCC-AACAAAATCCCAGCCACATTGGATATAAGAATTT
* * * * *
6011 GTTTTTACGAGCATCTGAATCTTGTTTCG--AT-TTA-ATTAGAAATAAATTAGAAAAAAAAAGG
443 GTTCTTACGAGCAT-TAAATCTTATTTCGATATATTAGATTAGAAATAAATTCGAAAAAAAATGG
* ** * * * *
6072 AAAAA-CGACATTAGAAGCGTGAAAAACCCTTC-AATCTTTTTGGCGTTGAATTATATATTTTTT
507 AAAAATC-AAATTAGAAATGTG-AAAGCCCTGCAAAT-TTTTAGGCGTTGAAATATATATTTTTT
* * * * * *
6135 ATGACTATTGTGGCAAAATATTGAGAAAAAA-TTCTTCGGGTAAGTTTTTAGC----CGAAATTG
569 ATGAATATTTTGGAAAAAAATTGAGAAAAAACTT-TTCGGGTAACTTTTT-GCAATTCGAAATCG
*
6195 TGTA-T-CATCACGGT
632 TGTACTCCATCACCGT
* * * * * *
6209 TTTTGGCTAAAAACACGTTTCAG-GACCCCAGCT-AAGTTTTGGATGATTTTTGGCAGAGGGACT
1 TTTTGGCTAAAAACGCGTTTCGGTGA-GCCAACTCAA-TTTTGTATGATTTTTGGCAGAGAGACT
* * * * * ** * **
6272 CCTTAAAATAACTATATTTATCC-AACAAAATCCCAGCCACATTGGATTTAAGGATTTGTTTTTA
64 CCTTGAAATATCAATATTCA-CCTAACCAAATGTCAGCCATAACGGATTTAAGGATTTGTTTTTA
* * * ** *** *
6336 CGAGCAT-TGAATTTTGTTTTGATATAATTAGAAATAAA-T-TCGAAAAAAATTTAAAAATGATA
128 CGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTATAAAAAAAAAAAGAAAAACGATA
* ** * * * * *
6398 TTATAATTGTG-AAAACCCTTCAAAT-TTTTTGGTGTTGAATTATATAATTTTTCTGAGTATTTT
193 TTAGAAGCGTGAAAAACCCTTC-AATCTTTTTGGTGTTGAATTAAATATTTTTTATGACTATTGT
* * * * * * * *
6461 GGGGAAAAAATTGAGGAGAAACTTTTCGGGTAAGTTTTTACAAAATTTTAGCCGAAATCGTGTAC
257 -GGCAAAATA-TGAGAAAAAAATTTTCGGGTCAG----T------TTTTAGCTGAAATCATGTAC
* **** * *
6526 TAACCATCATC-GTTTGTGGCTAAAAACGCGTTTCGGTGTGCTAGCTC------G--TGA----T
310 TAACCATCA-CAGTTTTTGGCTAAAAACGCGTTTCGGAACCCCAACTCAATTTTGCATGATTTTT
* * * ** * ** *
6578 GGCA-ATGA-TCTCC---AAAAA--T---ATTCA-CTAACCAAATGTCAGCCATAACGGATTTAA
374 GGCAGA-GAGACTCCTTAAAAAATCTAAAATT-ATCCAACAAAATCCCAGCCACATTGGATATAA
* * * * *
6632 GGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG--AT-TTA-ATTAAAAATAAATTCGAAAAA
437 GAATTTGTTCTTACGAGCAT-TAAATCTTATTTCGATATATTAGATTAGAAATAAATTCG-AAAA
* * ** * * * * *
6693 AAAAT-GAAATA-CGATATTAGAAGCGTGAAAAACACTTC-AATCTCTTT-GGTGTTGAATTATA
500 AAAATGGAAAAATC-AAATTAGAAATGTG-AAAGCCCTGCAAAT-T-TTTAGGCGTTGAAATATA
** * * * * * *
6754 TATTTTTTATGACCATTGTGGCAAAATATTGAGGAAAAA-TTTTCGGGTTCAGTTTTTAGC----
561 TATTTTTTATGAATATTTTGGAAAAAAATTGAGAAAAAACTTTTCGGG-TAACTTTTT-GCAATT
* **
6814 CGAAATCGTGTAATAACCATCACAAT
624 CGAAATCGTGTACT--CCATCACCGT
* * * * * * *
6840 TTTGGGCTAAAAACGCGTTCCGGAGACCCGACTCAATTTTGCATGATTTTTGG-AGCAAAGACTC
1 TTTTGGCTAAAAACGCGTTTCGGTGAGCCAACTCAATTTTGTATGATTTTTGGCAG-AGAGACTC
* * * * * * * ** * *
6904 CTTGAAGTATATCTAGATTAATCGAA-CAGAATCTCAGCCACATTGGATATAAGAATTTGTTTTT
65 CTTGAA--ATATCAATATTCACCTAACCA-AATGTCAGCCATAACGGATTTAAGGATTTGTTTTT
* * * *** * ** * *
6968 ACGAGCATCTGAATCTTATTTCGATTTAGTTAGAAATTAATTCGGAAAAAATATGGATAAACAAT
127 ACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTATAAAAAAAAAAAGAAAAACGAT
* * * * * * ** *
7033 ATTAGAAGCATG-GAAAGCCTGTCAATCTTTTTGGCGTTGAAATATATATTTTTTCCGAATATT-
192 ATTAGAAGCGTGAAAAACCCT-TCAATCTTTTTGGTGTTGAATTAAATATTTTTTATGACTATTG
* * * * *
7096 TTGCAAAAAATTGAGAAAAAAAAACTTTTCGGGTTAGTTTTTAGCCGAAATCGTGTACTAACCAT
256 TGGCAAAATA-TGAG--AAAAAAA-TTTTCGGGTCAGTTTTTAGCTGAAATCATGTACTAACCAT
* * ** * *** * *
7161 CACCGTTTTTGACTAAAAACGCGTTTCGGTGCGCTGGCTCAGTTTTGCATGATATTTGGCAGAGA
317 CACAGTTTTTGGCTAAAAACGCGTTTCGGAACCCCAACTCAATTTTGCATGATTTTTGGCAGAGA
* * * * * ** * * * * * *
7226 GACTCTTTGAAATATC-AATATTCA-CCTAACCAAATGTCAGCCATAATGTATTTAGGGATTTGT
382 GACTCCTTAAAAAATCTAAAATT-ATCC-AACAAAATCCCAGCCACATTGGATATAAGAATTTGT
* * * * * **
7289 TTTTACGAGCATCTGAATTTTGTTTCG--AT-TTA-ATTAGAAATAAATTAGAAAAAAAA-ACAA
445 TCTTACGAGCAT-TAAATCTTATTTCGATATATTAGATTAGAAATAAATTCGAAAAAAAATGGAA
* * ** * * * *
7349 AAAACGATATTAGAAGCGTGAAAAACCCTTC-AATCTTTTTGGCATTGAAATATATATTTTTTAT
509 AAATC-AAATTAGAAATGTG-AAAGCCCTGCAAAT-TTTTAGGCGTTGAAATATATATTTTTTAT
* * ** * * *
7413 GACTATTGTGTCAAAATATTGAGAAAAAAATTTTCGCGTCAA-TTTTTAGC----CGAAATCGTG
571 GAATATTTTGGAAAAAAATTGAGAAAAAACTTTTCGGGT-AACTTTTT-GCAATTCGAAATCGTG
* *
7473 TACAAAT-AATCACGGT
634 TAC---TCCATCACCGT
* * * * *
7489 TTTTGGCTAAAAACGCGTTTTGG-GACCCCAACTTAGTTTTGGATGATTTTTGGC--AGAGACTC
1 TTTTGGCTAAAAACGCGTTTCGGTGA-GCCAACTCAATTTTGTATGATTTTTGGCAGAGAGACTC
* * * * * ** * * ** *
7551 CTT-AAATTATCTATATTTATCAAACAAAATCCCAACCACATTGGATTGAAGGATTTGTTTTTAC
65 CTTGAAA-TATCAATATTCACCTAACCAAATGTCAGCCATAACGGATTTAAGGATTTGTTTTTAC
* * ** ***
7615 GAGCAT-TGAATCTAGTTTCGATATAATTAGAAATAAATT-CGAAAAAATGGA-AAAAACGATAT
129 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTATAAAAAAAAAAAGAAAAACGATAT
* * * * * *
7677 TATAATCGTG-AAAACCCTTCAAT-TTTTTGGGTGTTGAATTATATAGTTTTTCTGAGTATTGTG
194 TAGAAGCGTGAAAAACCCTTCAATCTTTTT-GGTGTTGAATTAAATATTTTTTATGACTATTGTG
* * * * * * **
7740 GTAAAAAAATTGAGGAAAAACTTTTCGGGTAAGCTTTCGCAAAATTTTAGCCGAAATTGTGTACT
258 G-CAAAATA-TGAGAAAAAAATTTTCGGGTCAG---T-------TTTTAGCTGAAATCATGTACT
* * * * * **
7805 AACCATGACGATTTTTTGGCTAAAAAC-CCTTTCTGAAGCCCGGCTCAATTTTGCATGATTTTTG
311 AACCATCAC-AGTTTTTGGCTAAAAACGCGTTTCGGAACCCCAACTCAATTTTGCATGATTTTT-
* ** * * * * * * * **
7869 GTGCA-A-AGACTCCTTGAACTATCCACATTTATCGACCCAAATCTCAGCCGTATTGGATATAAG
374 G-GCAGAGAGACTCCTTAAAAAATCTAAAATTATCCAACAAAATCCCAGCCACATTGGATATAAG
* * * * * * *
7932 GATTAGTTTTTACGAGCATCTAAATATTGTTTCG--AT-TTA-ATTAGAAATTAATTTG--AAAA
438 AATTTGTTCTTACGAGCAT-TAAATCTTATTTCGATATATTAGATTAGAAATAAATTCGAAAAAA
* * * * * *
7991 AATAGAAAAATGATATTA-AAA-GCATGAAAACCC-GTC-AATCATTTT-GGCGTAGAAATACAT
502 AATGGAAAAATCAAATTAGAAATG--TGAAAGCCCTG-CAAAT--TTTTAGGCGTTGAAATATAT
* * * * * *
8051 ATTTTTTTCTGAATATTTTGCAAAACATTAA-T-AAAAAAAACTTTTCAGGTCAGTTTTTAGC--
562 A-TTTTTTATGAATATTTTGGAAAA-A--AATTGAGAAAAAACTTTTCGGGTAACTTTTT-GCAA
*
8112 --CGAAATCGTGTACTAACCATCACAGT
622 TTCGAAATCGTGTACT--CCATCACCGT
* * ** ** * *
8138 TTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGTATGATTTTTTGTGCA-A-AAAAT
1 TTTTGGCTAAAAACGCGTTTCGGTGAGCCAACTCAATTTTGTATGA-TTTTTG-GCAGAGAGACT
* * * * * * * ** * *
8201 CCTTGAAATATATCTAGATTAATC-AAGACAGAATCTCAGCCACATTGGATATAAGAATTTGTTT
64 CCTTG-AA-ATATCAATATTCACCTAA-CCA-AATGTCAGCCATAACGGATTTAAGGATTTGTTT
* * * * *** * ** * *
8265 TTACGAGCAACTGAATCTTATTTCGATTTAGTTAGAAATTAATTCGGAAAAAATATGGATAAACA
125 TTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTATAAAAAAAAAAAGAAAAACG
* * * * * * ** *
8330 ATACTAGAAGCTTGGAAAA-CCTGTCAATCTTTTTGGCGTTGAAATATATA-TTTTTCCGAATAT
190 ATATTAGAAGCGTGAAAAACCCT-TCAATCTTTTTGGTGTTGAATTAAATATTTTTTATGACTAT
* ** * * * **
8393 TTTGTAAAAAAATTGATAAAAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATTGTGTACTAACCA
254 TGTGGCAAAATA-TGA-GAAAAAAA-TTTTCGGGTCAGTTTTTAGCTGAAATCATGTACTAACCA
* * * ** * * * *
8458 TCACCGTTTTTTGCTAAAAACGTGTTTCGGTGCGCCAGCTCAGTTTTGCATGATTTTTGGCGGAG
316 TCACAGTTTTTGGCTAAAAACGCGTTTCGGAACCCCAACTCAATTTTGCATGATTTTTGGCAGAG
* * * * * ** * * ** * *
8523 AGACTCCTTGAAATATC-AATATTCA-CCTAACCAATTGTCAGTCATAACGGATTTAAGGATTTG
381 AGACTCCTTAAAAAATCTAAAATT-ATCC-AACAAAATCCCAGCCACATTGGATATAAGAATTT-
* * *
8586 GTT-TTACGAGCATCTGAATCCTATTTCG--AT-TTA-ATTAGAAATAAATTCGAGAAAAAAAGG
443 GTTCTTACGAGCAT-TAAATCTTATTTCGATATATTAGATTAGAAATAAATTCGA-AAAAAAATG
* * * ** * * *
8646 GAAATA-CGATATTGGAAGCGTGAAAAACCCTTC-AATCTTTT-GGCGTTGAATTATATATTTTT
506 GAAAAATC-AAATTAGAAATGTG-AAAGCCCTGCAAAT-TTTTAGGCGTTGAAATATATATTTTT
*
8708 TATGACTATT
568 TATGAATATT
8718 GTGGCAAGAT
Statistics
Matches: 5288, Mismatches: 847, Indels: 571
0.79 0.13 0.09
Matches are distributed among these distances:
626 6 0.00
627 190 0.04
628 79 0.01
630 2 0.00
631 58 0.01
632 10 0.00
633 52 0.01
634 27 0.01
635 16 0.00
636 40 0.01
637 40 0.01
638 50 0.01
639 29 0.01
640 60 0.01
641 87 0.02
642 138 0.03
643 166 0.03
644 253 0.05
645 292 0.06
646 101 0.02
647 142 0.03
648 392 0.07
649 354 0.07
650 380 0.07
651 80 0.02
652 526 0.10
653 180 0.03
654 119 0.02
655 203 0.04
656 54 0.01
657 113 0.02
658 111 0.02
659 67 0.01
660 45 0.01
661 3 0.00
662 22 0.00
663 222 0.04
664 347 0.07
665 70 0.01
666 148 0.03
667 14 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (647 bp):
TTTTGGCTAAAAACGCGTTTCGGTGAGCCAACTCAATTTTGTATGATTTTTGGCAGAGAGACTCC
TTGAAATATCAATATTCACCTAACCAAATGTCAGCCATAACGGATTTAAGGATTTGTTTTTACGA
GCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTATAAAAAAAAAAAGAAAAACGATATTA
GAAGCGTGAAAAACCCTTCAATCTTTTTGGTGTTGAATTAAATATTTTTTATGACTATTGTGGCA
AAATATGAGAAAAAAATTTTCGGGTCAGTTTTTAGCTGAAATCATGTACTAACCATCACAGTTTT
TGGCTAAAAACGCGTTTCGGAACCCCAACTCAATTTTGCATGATTTTTGGCAGAGAGACTCCTTA
AAAAATCTAAAATTATCCAACAAAATCCCAGCCACATTGGATATAAGAATTTGTTCTTACGAGCA
TTAAATCTTATTTCGATATATTAGATTAGAAATAAATTCGAAAAAAAATGGAAAAATCAAATTAG
AAATGTGAAAGCCCTGCAAATTTTTAGGCGTTGAAATATATATTTTTTATGAATATTTTGGAAAA
AAATTGAGAAAAAACTTTTCGGGTAACTTTTTGCAATTCGAAATCGTGTACTCCATCACCGT
Found at i:11186 original size:18 final size:19
Alignment explanation
Indices: 11147--11186 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
11137 GTGCTCCCGT
11147 TGTGATGCACCCACTTTTCAA
1 TGTGATGCACCCA--TTTCAA
11168 TGTGATGCACCCA-TTCAA
1 TGTGATGCACCCATTTCAA
11186 T
1 T
11187 TCTGACCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
21 13 0.68
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.33
Consensus pattern (19 bp):
TGTGATGCACCCATTTCAA
Found at i:11864 original size:2 final size:2
Alignment explanation
Indices: 11857--11885 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11847 TCAATCATTA
11857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11886 CATGAAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15912 original size:2 final size:2
Alignment explanation
Indices: 15899--15928 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15889 GTAAGATAAG
*
15899 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15929 TAGTTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:53271 original size:128 final size:128
Alignment explanation
Indices: 53043--53298 Score: 485
Period size: 128 Copynumber: 2.0 Consensus size: 128
53033 TTATGTTTTC
53043 AACTTTGGCTCCTGTCAACTTATGGGTTATGTGCTTGCGGGGCAGGAAATAGTTTCCATCAAATA
1 AACTTTGGCTCCTGTCAACTTATGGGTTATGTGCTTGCGGGGCAGGAAATAGTTTCCATCAAATA
53108 GGGTTATTTATAAAATTTCCTTGCCTTACTAGACTGGTCTGAGCTAATTAGAAGTTTTGGATG
66 GGGTTATTTATAAAATTTCCTTGCCTTACTAGACTGGTCTGAGCTAATTAGAAGTTTTGGATG
* *
53171 AACTTTGGCTCCTGTCAACTTCTGGGTTATGTGCTTGCGGGGCAGGAAATAGTTTCCATCAAGTA
1 AACTTTGGCTCCTGTCAACTTATGGGTTATGTGCTTGCGGGGCAGGAAATAGTTTCCATCAAATA
*
53236 GGGTTATTTATAAAATTTCCTTGCCTTACTAGACTGGTTTGAGCTAATTAGAAGTTTTGGATG
66 GGGTTATTTATAAAATTTCCTTGCCTTACTAGACTGGTCTGAGCTAATTAGAAGTTTTGGATG
53299 TTTGATAATG
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 125 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (128 bp):
AACTTTGGCTCCTGTCAACTTATGGGTTATGTGCTTGCGGGGCAGGAAATAGTTTCCATCAAATA
GGGTTATTTATAAAATTTCCTTGCCTTACTAGACTGGTCTGAGCTAATTAGAAGTTTTGGATG
Found at i:56501 original size:18 final size:18
Alignment explanation
Indices: 56478--56514 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
56468 TATACAAGGG
56478 GAGGTGCAGGTCACCGGT
1 GAGGTGCAGGTCACCGGT
*
56496 GAGGTGCAGGTTACCGGT
1 GAGGTGCAGGTCACCGGT
56514 G
1 G
56515 GCATAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.19, G:0.46, T:0.19
Consensus pattern (18 bp):
GAGGTGCAGGTCACCGGT
Found at i:57482 original size:12 final size:12
Alignment explanation
Indices: 57465--57500 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
57455 CTGTCACGAT
57465 GATCACGGTCCC
1 GATCACGGTCCC
* *
57477 GATCACGATCAC
1 GATCACGGTCCC
57489 GATCACGGTCCC
1 GATCACGGTCCC
57501 TATCCTTGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.22, C:0.39, G:0.22, T:0.17
Consensus pattern (12 bp):
GATCACGGTCCC
Done.