Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017568.1 Corchorus olitorius cultivar O-4 contig17601, 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: 27410
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Found at i:5152 original size:121 final size:121
Alignment explanation
Indices: 4938--5168 Score: 408
Period size: 121 Copynumber: 1.9 Consensus size: 121
4928 AGAGAGGTAT
4938 CTTTGCCCTTTAAAGTCACAGTGAACTATATCTGAAGAAGCTTTATCAGGTGTCGATCATGATGA
1 CTTTGCCCTTTAAAGTCACAGTGAACTATATCTGAAGAAGCTTTATCAGGTGTCGATCATGATGA
* **
5003 AGTTGGCAATGGATTAGTTTAGGAAATGTCCTGAGAACAAATTGTCTTGCCCTCAC
66 AGTTGGCAAAGGATTAGACTAGGAAATGTCCTGAGAACAAATTGTCTTGCCCTCAC
* * *
5059 CTTTGCCCTTTCAAGTCACAGTGAACTGTATCTGAAGAAGCTTTATCATGTGTCGATCATGATGA
1 CTTTGCCCTTTAAAGTCACAGTGAACTATATCTGAAGAAGCTTTATCAGGTGTCGATCATGATGA
5124 AGTTGGCAAAGGATTAGACTAGGAAATGTCCTGAGAACAAATTGT
66 AGTTGGCAAAGGATTAGACTAGGAAATGTCCTGAGAACAAATTGT
5169 GTTGGTTTTA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 104 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (121 bp):
CTTTGCCCTTTAAAGTCACAGTGAACTATATCTGAAGAAGCTTTATCAGGTGTCGATCATGATGA
AGTTGGCAAAGGATTAGACTAGGAAATGTCCTGAGAACAAATTGTCTTGCCCTCAC
Found at i:25675 original size:670 final size:661
Alignment explanation
Indices: 20702--27406 Score: 6598
Period size: 670 Copynumber: 10.0 Consensus size: 661
20692 ATAAAAAATC
* * ** * * * * * *
20702 ATATTCATCTAATCAGATCGCAGAAATATTGCATTTAAGGATTTATTTTTACGAGTATCGGAATT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATC-TAATC
* * * * *
20767 TTGTTTCGATTTAATTAGAAATTAATTCGGAAAGAAATATGAAAAACGATATGAAAAGCGTGAAA
65 TTATTTCGATTTAATTAGAAATTAATTCGGAAA-AATTAAGGAAAACGATATGAGAAGCGTGAAA
* * * * * * * * *
20832 AGTCCTCCAACCATTTTGGAGTTAAATTATATATAT-T-TCACAAGTATTTTGGAC-AAAAACTG
129 AGTCCTTCAA-TATTTTGGCGGTGAATTATATATATCTAT-ACGAGTA-ATTAG-CTAAAAATTG
* * * * * *
20894 AGGAAAAAT-TTTCGGGACATTTTTTTGCAAAATTTTAACCGAAA-CTGTATACTA-ACTATCAT
190 AGGAAAAATCTTTC-GGTCA-ATTTTTGCAAAATTTTAGCCGAAATC-GTGTACTATACCATCAC
* * * *
20956 GATTTTTTGCTAAAAACGTGTTTCGGGGTCCCGACTTAGTTCTGCATGATTTTCGGCGTCGAAAC
252 GATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTCGAGAC
* * * * * * **
21021 TCCTTGAAATATCTATAGTCATCTAACCAAATTTGAGCCACATTTG-ATTTAAGGATTTACTTTT
317 TCCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCA-AATTGCATTTAAGGATTTGTTTTT
* * * *
21085 ACGAGTATCTAAATCTTATTTTGATTTAATTAGAAATTAATTCGGAAAAAAGT-AGGAAAAACGA
381 ACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGG-AAAAAGTAATGAAAAACGA
* * ** * * ** *
21149 TATTAGAAGCGTAAAAAACCCTTCAATATTTTTGGAATTG-AATTATATATATCTTTATGAGTAT
445 TATGAGAA-CGTGAAAAGTCCTCCAATA-TTTTGG-AGTGAAATTATATATAT-TACACGAGTAT
* * * * * * * * *
21213 TTTAGCCAAAAATTGAGGAAATACCTTTC-AAGTCAATTTTTGCAAAATTTCAACCAAAATCGTG
506 ATTAGGCAAAAATTGAGGAAAAATCTTTCGGA-TCAATTTTTACAAAATTTTAGCCGAAATCGTG
* * * * * * *** *
21277 TAATAATCATCACTG-TTTTTGGCTAAAAACGCATTTCAGGACCCCGTGACAGTTTTGCATGATT
570 TACTAACCATCAC-GATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATT
** * * * * * *
21341 TTTAGTACCAAGACTCCTTGAGATATCC
634 TTCGGCATCGAGACTCCTTCAAATATCT
* * *
21369 ATATTCATTTAATCAAATCTCA-CCGACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAAT
1 ATATTCATCTAATCAAATCTCAGCC-ACATTGCATTTAAGAATTTGTTTTTACGAGCATC-TAAT
* * * * * *
21433 CTTGTTTCGATTTGATTAGAAACTAATTCGGAAAAAATAATGAAAAACGATATGAAAAGCGTGAA
64 CTTATTTCGATTTAATTAGAAATTAATTCGGAAAAATTAA-GGAAAACGATATGAGAAGCGTGAA
* * * * * *
21498 AAGTCCTCCAATATTTTTGGAGTTAAACTATATATATATATATATCACGAGTATTTTAGAC-AAA
128 AAGTCCTTCAATA-TTTTGGCGGT-GA--AT-TATATATATCTAT-ACGAGTA-ATTAG-CTAAA
* * *
21562 AATTGAGGAAAACTTTTTCAGGT-AATTTTTTGCAACATTTTAGCCGAAATCGTG-----TA--A
185 AATTGAGGAAAAATCTTTC-GGTCAA-TTTTTGCAAAATTTTAGCCGAAATCGTGTACTATACCA
* *
21619 TCACGATTTTTTTGCGAAAAAAGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTC
248 TCACGA-TTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTC
** *
21684 GAGACTTTTTCAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGT
312 GAGACTCCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCAAATTGCATTTAAGGATTTGT
* *
21749 TTTTACGACCATCTAAATCTTTTTTCGATTTAATTAGAAATTAATTCGG-AAAAGTAA-GAAAAA
377 TTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAGTAATGAAAAA
* * * * *
21812 CGATATTAGAAGCGTAAAAAG-CCATTCAATATTTTTGACATTGAATTATATATATATATATATC
442 CGATATGAGAA-CGTGAAAAGTCC-TCCAATA-TTTTG-GAGTGAA--AT-TATATATAT-TA-C
* * * * * * * *
21876 TTTATC-AGTATTTTAGCCAAAAATTAAGGAAATACCGTTCTGG-TCAATTTTTGCAAAATTATA
498 ---A-CGAGTATATTAGGCAAAAATTGAGGAAAAATCTTTC-GGATCAATTTTTACAAAATTTTA
* * * * * * ** *
21939 GCCGAAATCTTGTAATAATCATCACTG-TTTTTGGATAAAAACGCATTTTAGGACCCC-AGCTCA
558 GCCGAAATCGTGTACTAACCATCAC-GATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGA-CTCA
* ** * * * * *
22002 GTTTTGCATGATTTTTAGCACCAAGACTCCTTGAGATATCC
621 GTTCTGCATGATTTTCGGCATCGAGACTCCTTCAAATATCT
* *
22043 ATATTCATCTAATCAAATCTCA-CCGACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAAT
1 ATATTCATCTAATCAAATCTCAGCC-ACATTGCATTTAAGAATTTGTTTTTACGAGCATC-TAAT
* * *
22107 CTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATTAACTAGGAAAAACGATATTAGAAGTGT
64 CTTATTTCGATTTAATTAGAAATTAATTCGGAAAAATT-A--AGG-AAAACGATATGAGAAGCGT
* ** * * * *
22172 AAAAAACCCTTCAATATTTTTGGCGTTGAATTATATATATATCTCT-CTGAGTAGTTCAACTAAA
125 GAAAAGTCCTTCAATA-TTTTGGCGGTGAA-T-TATATATATCTATAC-GAGTAATT-AGCTAAA
* * * *
22236 ATTTGAGGAAATATCTTTCGGGTCAAATTTTGCAAAATTTTAGCCGAAATCGTGTATTA-ACCAT
185 AATTGAGGAAAAATCTTTC-GGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTATACCAT
* * * *
22300 CACGATTTTTTGCTAAAAACGCGTTCCGGGGCCCCGACTCAGTTGTGCATGATTTTTGGCGTCAA
249 CACGATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTCGA
* * *
22365 GACTCCTTGAAATATCTATATTCATCTAATAAAATCTCAGGCAAATTGCATTTAAGGATTTGTTT
314 GACTCCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCAAATTGCATTTAAGGATTTGTTT
* * * * * *
22430 TTACGAGCATCTATATCTTATTTCAACTTAATTAGAAATTAATTCGGAAAAAAT-AGGAAAAACG
379 TTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAGTAATGAAAAACG
* * ** * * * *
22494 ATAT-A-AGCGTAAAAAACCCTTCAATATTTTTGGCGCTG-AATTATATATATATCTCTATGAGT
444 ATATGAGAACGTGAAAAGTCCTCCAATA-TTTTGGAG-TGAAATTATATATAT-T-AC-ACGAGT
* ** * *
22556 ATTTTA-GCTAAAAATTTTCGGAAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATC
504 ATATTAGGC-AAAAA-TTGAGGAAAAATCTTTCGGATCAATTTTTACAAAATTTTAGCCGAAATC
* * *
22620 ATGTACTAACCTTCACGATTTTTTTTGCTAAAAACGTG-TTCTGGGGCCCCGACTCAGTTCTGCA
567 GTGTACTAACCATCACGA--TTTTTTGCTAAAAACGCGTTTC-GGGGCCCCGACTCAGTTCTGCA
* * * *
22684 TGATTTTCAGCGTCAAGACTCGTTCAAATATCT
629 TGATTTTCGGCATCGAGACTCCTTCAAATATCT
* * *
22717 ATATTCATCTAATCAAATCTCATCCACATTGCATTTAA-AGCTTTATTTTTACGAGCATCTGAAT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGA-ATTTGTTTTTACGAGCATCT-AAT
* * * *
22781 -TTTTTTC-ACTTTAATTAGAAATTAACTCGGAAAAATTAATGAAAAACGATATGAAAAGCGTGA
64 CTTATTTCGA-TTTAATTAGAAATTAATTCGGAAAAATTAA-GGAAAACGATATGAGAAGCGTGA
* * * * * *
22844 AAAGTCCTCCAATCATTTTAGAGTTAAATTATATATAT-TAGACGAGTATATTAGGC-AAAAATT
127 AAAGTCCTTCAAT-ATTTTGGCGGTGAATTATATATATCTATACGAGTA-ATTA-GCTAAAAATT
* * * * *
22907 GGGGAAAAAAAAT-TTTCAGATCACTTTTTCTCAGAAA-TTTAGCCGAAATCGTGTAATA-ACCA
189 GAGG---AAAAATCTTTC-GGTCAATTTTT-GCA-AAATTTTAGCCGAAATCGTGTACTATACCA
*
22969 TCACGATTTTTTTTGCTAAAAACGCGTTTTGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGT
248 TCACGA--TTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGT
* * * * *
23034 CGAGCCTCCTTCAAATATCTATATTCATCTAATCAAATCTCAGTCACATTACATTTAAGGTTTTT
311 CGAGACTCCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCAAATTGCATTTAAGG---AT
* * * * *
23099 TTTTTTTTACGAGCATCCAAATCTTGTTTCAATCTAATTAGAAATTAATTCGGAAAAAGT-AGGA
373 TTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAGTAATGA
* ** * * *
23163 AAAACGATATTAGAAGCGT-AAAAAACCTTTCAATATTTCTGGCGTTG-AATTATATATATTTCT
438 AAAACGATATGAGAA-CGTGAAAAGTCC-TCCAATATTT-TGGAG-TGAAATTATATATATTAC-
* * * * *
23226 ATGAATAT-TTCA-GCTAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCC
498 ACGAGTATATT-AGGC-AAAAATTGAGGAAAAATCTTTCGGATCAATTTTTACAAAATTTTAGCC
* * * *
23289 GAAATCGTGTACTAAACATCACGATTTTTT-TTAAAAA-ACGTGTTCTAGGGCCCCGACTCAGTT
561 GAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACGCGT-TTC-GGGGCCCCGACTCAGTT
* *
23352 CTGCATGATTTTCGGCGTCAAGACTCCTTCAAATATCT
624 CTGCATGATTTTCGGCATCGAGACTCCTTCAAATATCT
* * * * * *
23390 ATATTCATCTAGTCAAATCTCAGCCAAATTACATTTAAGTATTTGTTTTTACGAGTATCTAAATT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCT-AATC
* * * * *
23455 TTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATCAATGAAAAACGATATGAAAAGTGTGAAA
65 TTATTTCGATTTAATTAGAAATTAATTCGGAAAAATTAA-GGAAAACGATATGAGAAGCGTGAAA
* *
23520 AGTCC-TCGAATCATTTTGG-AGTGAAATTATATATATC-ACACGAGTATATTAGGC-AAAAATT
129 AGTCCTTC-AAT-ATTTTGGCGGTG-AATTATATATATCTATACGAGTA-ATTA-GCTAAAAATT
* * * *
23581 GAGGAAAAATTTTTCGGATCATTTTTTGCAGAATTTTAGCCGAAATCGTGTAC-GT----T-ACG
189 GAGGAAAAATCTTTCGG-TCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTATACCATCACG
* * * ** *
23640 ATTTTTTGCTAAAAACGCGTTTCGGGGCCCTGACTTAGTTCTGCATAATTTTCAACATCGAGACT
253 ATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTCGAGACT
* * * * * * **
23705 CATTCAAATATCTATATTCATTTAATCAAATATCAGCCACATTGCATTGAAGAATTTGTTTTTGG
318 CCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCAAATTGCATTTAAGGATTTGTTTTTAC
* * * *
23770 GAGCATCTATATCTTATTTCAATTTAATTAGAAATTAATTCGGAAAAAGT-A-GGAAAACGATAT
383 GAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAGTAATGAAAAACGATAT
* * ** * * * *
23833 TAGAAGCGTAAAAAACCCTTCAATATTTCAGGCGTTG-AATTATATATATCT-CTATGAGTAT-T
448 GAGAA-CGTGAAAAGTCCTCCAATATTT-TGGAG-TGAAATTATATATAT-TAC-ACGAGTATAT
* * *
23895 TCA-GCTAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGT
508 T-AGGC-AAAAATTGAGGAAAAATCTTTCGGATCAATTTTTACAAAATTTTAGCCGAAATCGTGT
* * *
23959 ACTAACCATCAC-ATTTTTTTTATTCTAAAAACGTGTTAT-GGGGCCCCGACTCAATTCTGCATG
571 ACTAACCATCACGA---TTTTT-TGCTAAAAACGCGTT-TCGGGGCCCCGACTCAGTTCTGCATG
* *
24022 ATTTTCGGCGTCGAGACTCCTTCAAATATAT
631 ATTTTCGGCATCGAGACTCCTTCAAATATCT
* * **
24053 ATATTCATC-AAGTCAAATCTCAGTCAAATTGCATTTAAGTTTTTGTTTTTACGAGCATCTGAAT
1 ATATTCATCTAA-TCAAATCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCT-AAT
* * * *
24117 CTTATTTCGATTTAATT-GGAATTAAATTCGGAAAAATTAATGAAAAACAATATGAGAAGTGTGA
64 CTTATTTCGATTTAATTAGAAATT-AATTCGGAAAAATTAA-GGAAAACGATATGAGAAGCGTGA
* * * *
24181 AAAGTCCTCCAATCATTTTGG-AGTGAAATTATATATAT-TACACGAGTATATTAGGC-CAAAAT
127 AAAGTCCTTCAAT-ATTTTGGCGGTG-AATTATATATATCTATACGAGTA-ATTA-GCTAAAAAT
* * * * * *
24243 TGAGGAAAAATTTTTCGGATCATTTTTTGTAGAATTTTCGCCGAAATCGTGTACT-TATCATCAC
188 TGAGGAAAAATCTTTCGG-TCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTATACCATCAC
* * * **
24307 GAATTTTCGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGAATTTCGGTATCGAGAC
252 GATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTCGAGAC
* * **
24372 TCCTTCAAGTATCTATATTCATCTAGTCAAATCTCAGCCAAATTGCATTTAAGTTTTTGTTTTTA
317 TCCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCAAATTGCATTTAAGGATTTGTTTTTA
* *
24437 CGAGCATCTAAAATCTTATTTCGATTTAATGAG-AATTAAATTCGG-AAAAGTTAATGAAAAACG
382 CGAGCATCT-AAATCTTGTTTCGATTTAATTAGAAATT-AATTCGGAAAAAG-TAATGAAAAACG
* * **
24500 ATATGAAAAGTGTGAAAAGTTATCCAATCATTTTGGAGTGAAATTATATATATTACACGAGTATA
444 ATATGAGAA-CGTGAAAAGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTATA
* *
24565 TTAGGCAAAAATTGAGGAAAAATTTTTCGGAT-AATTTTTTACAGAATTTTAGCCGAAATCGTGT
507 TTAGGCAAAAATTGAGGAAAAATCTTTCGGATCAA-TTTTTACAAAATTTTAGCCGAAATCGTGT
* * *
24629 ACTAACTATCACGATTTTTTGACGATTTTTTGCTAAAAACGCGTTTCGGGGTCCTGACTCAGTTC
571 ACT-A--A-C-C-A-----TCACGATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTC
*
24694 TGCATGATTTTCGGTATCGAGACTCCTTCAAATATCT
625 TGCATGATTTTCGGCATCGAGACTCCTTCAAATATCT
* *
24731 ATATTCATCTGATAAAATCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCTATATC
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCTA-ATC
* * * *
24796 TTATTTCAACTTAATTAGAAATTAATTCGGAAAAAGT-AGGAAAAACGATATTAGAAGCGTGAAA
65 TTATTTCGATTTAATTAGAAATTAATTCGGAAAAATTAAGG-AAAACGATATGAGAAGCGTGAAA
** * *** * *
24860 AACCCTTCAATATTTATGGC-GTAGAATTATATATATCTTTTTTAGTATTTCAGCTAAAAGTTGA
129 AGTCCTTCAATATTT-TGGCGGT-GAATTATATATATCTATACGAGTAATT-AGCTAAAAATTGA
* * *
24924 GGAAATATCTTACGGGTCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTA-ACCATCACGAT
191 GGAAAAATCTTTC-GGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTATACCATCACGA-
* * * * *
24988 TTTTTTTTTTTCTAAAAACGTGTTTCGGGGCCCCGGCTCAGTTGTGCATGATTTTCGGCGTCAAG
254 ----TTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTCGAG
* * *
25053 ACTCCTTCGAATATATATATTCATC-AAGTCAAATCTCAGCCAAATTGCATTTAA-GTTTTGTTT
315 ACTCCTTCAAATATCTATATTCATCTAA-TCAAATCTCAGCCAAATTGCATTTAAGGATTTGTTT
* * *
25116 TTACGAGCATCTAAATCTTGTTTCGACTTAATT-GGAATTAAATTCGGAAAAAGTAATGAAAAAT
379 TTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATT-AATTCGGAAAAAGTAATGAAAAAC
*
25180 AATATGAGAACTGTGAAAAGTCCTCCAATCATTTTGGAGTGAAATTATATATATTACACGAGTAT
443 GATATGAGAAC-GTGAAAAGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTAT
* * * *
25245 ATTAGGCGAAAATTGAGGAAAAATTTTTCGGATCATTTTTTACAGAATTTTAGCCGAAATCGTGT
506 ATTAGGCAAAAATTGAGGAAAAATCTTTCGGATCAATTTTTACAAAATTTTAGCCGAAATCGTGT
*
25310 ACTAACCATAACGATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTT
571 ACTAACCATCACGATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTT
25375 CGGCATCGAGACTCCTTCAAATATCT
636 CGGCATCGAGACTCCTTCAAATATCT
* * * *
25401 ATATTTATCTAATAAAATCTCAGCAACATTGCATTTAAGAATTTGTTTTTACGAGCGTCTATATC
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCTA-ATC
* * * * *
25466 TTATTTCAACTTAATTAGAAATTAATTCGGAAAAAGT-AGGAAAACGATATTAGAAGCGTAAAAA
65 TTATTTCGATTTAATTAGAAATTAATTCGGAAAAATTAAGGAAAACGATATGAGAAGCGTGAAAA
** *
25530 ACCCTTCAATATTTCTGGCGGTGAATTA-ATATATCTATAAGAGTAATTCAGCTAAAAATTGAGG
130 GTCCTTCAATATTT-TGGCGGTGAATTATATATATCTATACGAGTAATT-AGCTAAAAATTGAGG
*
25594 AAATATCTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACGGTGTACTCACCATCA
193 AAAAATCTTTC-GGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC----TA-T-ACCATCA
* * * * *
25659 CGATTTTTTGCTAAAAACACGTTTCGGGGCACTGACTCTGTTCTGCATGATTTTCGGCTTCGAGA
251 CGATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTCGAGA
** * * * * *
25724 CTATTTCAAGTATCTATATTCATCTAGTCAAATTTCAGCCAAATTGCATTT-ATGTTTTGTTTTT
316 CTCCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCAAATTGCATTTAAGGATTTGTTTTT
* * * * *
25788 ACGAGAATCTGAATCTTGTTTCGATTTAATTTGAAATTAATACCGAAAAA-TCAATGAAAAACGA
381 ACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAGT-AATGAAAAACGA
25852 TATGA-AACGAGTGAAAAGTCCTCCAATCATTTTGGAGTGAAATTATATATATTACACGAGTATA
445 TATGAGAAC--GTGAAAAGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTATA
* * * * *
25916 TTAGGCGAAAATTGAGGAAAAATTTTTCGGATCATTTTTTTACAGAATTTTAGCCGAAATCGTAT
507 TTAGGCAAAAATTGAGGAAAAATCTTTCGGATCA-ATTTTTACAAAATTTTAGCCGAAATCGTGT
*** * *
25981 ACTAACCATCACGATTTTTTGCTAAAAACATTTTTTGGGGCCCCGGCTCAGTTCTGCATGATTTT
571 ACTAACCATCACGATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTT
26046 CGGCATCGAGACTCCTTCAAATATCT
636 CGGCATCGAGACTCCTTCAAATATCT
*
26072 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGAATTT-TTTTTACGAGCGTCTATATC
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCTA-ATC
* * * * *
26136 TTATTTCAACTTT-ATTAGAAATTAATTCGAAAAAAAT-AGGAAAAACGATATTAGAAGCGTAAA
65 TTATTTCGA-TTTAATTAGAAATTAATTCGGAAAAATTAAGG-AAAACGATATGAGAAGCGTGAA
** * * * *
26199 AAACCCTTCAATATTTATGGCGTTGAATTATATATATCTCTATGAGTATTTCAGCTAAAAATTGA
128 AAGTCCTTCAATATTT-TGGCGGTGAATTATATATATCTATACGAGTAATT-AGCTAAAAATTGA
* *
26264 GGAAAAATTTTTCGTGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTACACCATCACGAT
191 GGAAAAATCTTTCG-GTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTATACCATCACGA-
* * * * *
26329 TTTTTTGCTGAAAACGCGTTAT-GGGGCACTGGCTCAGTTCTGCATGATTTTCGGCATCGAGACT
254 TTTTTTGCTAAAAACGCGTT-TCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTCGAGACT
* *
26393 CCTTCAAATATCTATATTCATCTAATCAAATCTCATCCACATTGCATTTAAGGATTTGTTTTTAC
318 CCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCAAATTGCATTTAAGGATTTGTTTTTAC
* * * *
26458 GAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATACCGAAAAATTAATGAAAAACGATAT
383 GAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAGTAATGAAAAACGATAT
*
26523 GA-AACGAGTGAAAAGTCCTCCAATCATTTTGGAGTGAAATTATATATATTACACAAGTATATTA
448 GAGAAC--GTGAAAAGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTATATTA
* * *
26587 GGCGAAAATTGAGGAAAAAAT-TTTCGGATCATTTTTTACAGAATTTTAGCCGAAATCGTGTACT
510 GGCAAAAATTGAGG-AAAAATCTTTCGGATCAATTTTTACAAAATTTTAGCCGAAATCGTGTACT
*
26651 AACCATCACGATTTTTTTGCTAAAAACGCGTTTCGTGGCCCCG-CTCAGTTCTGCATGATTTTCG
574 AACCATCACGA-TTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCG
* *
26715 GTATCGAGACTACTTCAAATATCT
638 GCATCGAGACTCCTTCAAATATCT
* * *
26739 ATATTCATTTAATCAAATCTCAGCCACATTGCATTTAAGTTATTTGTTTTTACGAGCGTCTGAAT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAG-AATTTGTTTTTACGAGCATCT-AAT
* * * *
26804 CTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATTAATGAATAACGATATGA-AATGTGTGA
64 CTTATTTCGATTTAATTAGAAATTAATTCGGAAAAATTAAGGAA-AACGATATGAGAA-GCGTGA
* * * *
26868 AAAGTCCTCCAATCATTTTGG-AGTGAAATTATATATAT-TACACGAGTATATTAGGTAAAAATT
127 AAAGTCCTTCAAT-ATTTTGGCGGTG-AATTATATATATCTATACGAGTA-ATTAGCTAAAAATT
* * * *
26931 GAGGAAATATCTTTCGACTCAATTTTTGCAGAATTTTAGCCGAAATCGTGTACGGTGTA-CATCA
189 GAGGAAAAATCTTTCG-GTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC--TATACCATCA
* * * * * *
26995 CGATTTTTTGCTGAAAACGCGTTTCGGGGCACTGACTTAGTTCTGGATGATTTTCGGCTTCGAGA
251 CGATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTCGAGA
** * * * **
27060 CTATTTCAAGTATCTATATTCATCTAGTCAAATTTCAGCCAAATTGCATTTAAGTTTTTGTTTTT
316 CTCCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCAAATTGCATTTAAGGATTTGTTTTT
* * * * *
27125 ACGAGCTTCTGAATCTTGTTTCGATTTAATTAGAATTTAATTCGGAAAAATTAATGAAAAATGAT
381 ACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAGTAATGAAAAACGAT
* * *
27190 ATGAAAAGTGTGAAAAGTCCTCCAATCATTTTGGAGT-AAATTATATATATCACACGAGTATATT
446 ATGAGAA-CGTGAAAAGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTATATT
* * * * * *
27254 AGGCAAAAATTGAGGAAAAATTTTTCGGGT-ATTTTTTGCAGAATTTTAACCGAAATCGTGTACT
509 AGGCAAAAATTGAGGAAAAATCTTTCGGATCAATTTTTACAAAATTTTAGCCGAAATCGTGTACT
* * * *
27318 AACCATTC-CCATTTTTTGCTAAAAACGCGTTTCGTGGCACTGACTCAGTTCTGCATGATTTTCG
574 AACCA-TCACGATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCG
* ** *
27382 GCTTCGAGACTATTTCAAGTATCT
638 GCATCGAGACTCCTTCAAATATCT
27406 A
1 A
27407 CATT
Statistics
Matches: 5289, Mismatches: 545, Indels: 408
0.85 0.09 0.07
Matches are distributed among these distances:
659 1 0.00
660 135 0.03
661 63 0.01
662 11 0.00
663 270 0.05
664 110 0.02
665 5 0.00
666 98 0.02
667 469 0.09
668 613 0.12
669 425 0.08
670 690 0.13
671 328 0.06
672 263 0.05
673 224 0.04
674 531 0.10
675 163 0.03
676 30 0.01
677 127 0.02
678 244 0.05
679 170 0.03
680 26 0.00
681 166 0.03
682 28 0.01
683 99 0.02
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (661 bp):
ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCTAATCT
TATTTCGATTTAATTAGAAATTAATTCGGAAAAATTAAGGAAAACGATATGAGAAGCGTGAAAAG
TCCTTCAATATTTTGGCGGTGAATTATATATATCTATACGAGTAATTAGCTAAAAATTGAGGAAA
AATCTTTCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTATACCATCACGATTTTTTG
CTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAA
TATCTATATTCATCTAATCAAATCTCAGCCAAATTGCATTTAAGGATTTGTTTTTACGAGCATCT
AAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAGTAATGAAAAACGATATGAGAACGT
GAAAAGTCCTCCAATATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCAAAAATTG
AGGAAAAATCTTTCGGATCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGAT
TTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGAGACTCC
TTCAAATATCT
Found at i:26057 original size:333 final size:330
Alignment explanation
Indices: 20702--27406 Score: 6763
Period size: 334 Copynumber: 20.0 Consensus size: 330
20692 ATAAAAAATC
* * ** * * * * *
20702 ATATTCATCTAATCAGATCGCAGAAATATTGCATTTAAGGATTTATTTTTACGAGTATCGGAATT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAA-GATTTGTTTTTACGAGCATCTGAATC
*
20767 TTGTTTCGATTTAATTAGAAATTAATTCGGAAAGAA-ATATGAAAAACGATATGAAAAGCGTGAA
65 TTGTTTCGATTTAATTAGAAATTAATTCGGAAA-AATA-ATGAAAAACGATATGAGAAGCGTGAA
* * * * * *
20831 AAGTCCTCCAACCATTTTGGAGTTAAATTATATATATTTCACAAGTAT-TTTGGACAAAAACTGA
128 AAGTCCTCCAA-TATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGG-CAAAAATTGA
* * * *
20895 GGAAAAA-TTTTCGGGA-CATTTTTTTGCAAAATTTTAACCGAAA-CTGTATACTAACTATCATG
191 GGAAAAATTTTTC-GGATCA-TTTTTTGCAAAATTTTAGCCGAAATC-GTGTACTAACCATCACG
* * * * *
20957 ATTTTTTGCTAAAAACGTGTTTCGGGGTCCCGACTTAGTTCTGCATGATTTTCGGCGTCGAAACT
253 ATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGAGACT
*
21022 CCTTGAAATATCT
318 CCTTCAAATATCT
* * * * ** * *
21035 ATAGTCATCTAACCAAATTTGAGCCACATTTG-ATTTAAGGATTTACTTTTACGAGTATCTAAAT
1 ATATTCATCTAATCAAATCTCAGCCACA-TTGCATTTAA-GATTTGTTTTTACGAGCATCTGAAT
* * * * *
21099 CTTATTTTGATTTAATTAGAAATTAATTCGGAAAAA-AGTAGGAAAAACGATATTAGAAGCGTAA
64 CTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATA--ATGAAAAACGATATGAGAAGCGTGA
** * * ** * * *
21163 AAAACCCTTCAATATTTTTGGAATTG-AATTATATATATCTTTATGAGTATTTTAGCCAAAAATT
127 AAAGTCCTCCAATA-TTTTGG-AGTGAAATTATATATAT-TACACGAGTATATTAGGCAAAAATT
* ** * * * * * * *
21227 GAGGAAATACCTTTC-AAGTCAATTTTTGCAAAATTTCAACCAAAATCGTGTAATAATCATCACT
189 GAGGAAAAATTTTTCGGA-TCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCAC-
* * * * *** * ** * * *
21291 G-TTTTTGGCTAAAAACGCATTTCAGGACCCCGTGACAGTTTTGCATGATTTTTAGTACCAAGAC
252 GATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGAGAC
* * *
21355 TCCTTGAGATATCC
317 TCCTTCAAATATCT
* *
21369 ATATTCATTTAATCAAATCTCA-CCGACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAAT
1 ATATTCATCTAATCAAATCTCAGCC-ACATTGCATTTAA-GATTTGTTTTTACGAGCATCTGAAT
* * *
21433 CTTGTTTCGATTTGATTAGAAACTAATTCGGAAAAAATAATGAAAAACGATATGAAAAGCGTGAA
64 CTTGTTTCGATTTAATTAGAAATTAATTCGG-AAAAATAATGAAAAACGATATGAGAAGCGTGAA
* * *
21498 AAGTCCTCCAATATTTTTGGAGTTAAACTATATATATATATATATCACGAGTATTTTAGACAAAA
128 AAGTCCTCCAATA-TTTTGGAG-TGAA--AT-TATATATAT-TA-CACGAGTATATTAGGCAAAA
* * *
21563 ATTGAGGAAAACTTTTTCAGG-TAATTTTTTGCAACATTTTAGCCGAAATCGTG---T-A--ATC
186 ATTGAGGAAAAATTTTTC-GGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATC
* * *
21621 ACGATTTTTTTGCGAAAAAAGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTCGA
250 ACGA-TTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGA
**
21686 GACTTTTTCAAATATCT
314 GACTCCTTCAAATATCT
* *
21703 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGACCATCTAAATC
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAA-GATTTGTTTTTACGAGCATCTGAATC
* * * *
21768 TTTTTTCGATTTAATTAGAAATTAATTCGGAAAAGTAA-GAAAAACGATATTAGAAGCGTAAAAA
65 TTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAATGAAAAACGATATGAGAAGCGTGAAAA
* * * * *
21832 G-CCATTCAATATTTTTGACATTGAATTATATATATATATATATCTTTATC-AGTATTTTAGCCA
130 GTCC-TCCAATA-TTTTG-GAGTGAA--AT-TATATATAT-TA-C---A-CGAGTATATTAGGCA
* * *** * * * * *
21895 AAAATTAAGGAAATACCGTTCTGG-TCAATTTTTGCAAAATTATAGCCGAAATCTTGTAATAATC
183 AAAATTGAGGAAAAATTTTTC-GGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACC
* * * ** * * **
21959 ATCACTG-TTTTTGGATAAAAACGCATTTTAGGACCCC-AGCTCAGTTTTGCATGATTTTTAGCA
247 ATCAC-GATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGA-CTCAGTTCTGCATGATTTTCGGCA
* * * * *
22022 CCAAGACTCCTTGAGATATCC
310 TCGAGACTCCTTCAAATATCT
*
22043 ATATTCATCTAATCAAATCTCA-CCGACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAAT
1 ATATTCATCTAATCAAATCTCAGCC-ACATTGCATTTAA-GATTTGTTTTTACGAGCATCTGAAT
* *
22107 CTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATTAACTAGGAAAAACGATATTAGAAGTGT
64 CTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAA-TAA-T--GAAAAACGATATGAGAAGCGT
* ** * * * * * *
22172 AAAAAACCCTTCAATATTTTTGGCGTTG-AATTATATATATATCTCTCTGAGTAGT-TCA-ACTA
125 GAAAAGTCCTCCAATA-TTTTGGAG-TGAAATTATATATAT-T-ACAC-GAGTA-TATTAGGC-A
* * * * ** *
22234 AAATTTGAGGAAATATCTTTCGGGTCAAATTTTGCAAAATTTTAGCCGAAATCGTGTATTAACCA
183 AAAATTGAGGAAAAATTTTTCGGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCA
* * * * *
22299 TCACGATTTTTTGCTAAAAACGCGTTCCGGGGCCCCGACTCAGTTGTGCATGATTTTTGGCGTCA
248 TCACGATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCG
*
22364 AGACTCCTTGAAATATCT
313 AGACTCCTTCAAATATCT
* * *
22382 ATATTCATCTAATAAAATCTCAGGCAAATTGCATTTAAGGATTTGTTTTTACGAGCATCT-ATAT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAA-GATTTGTTTTTACGAGCATCTGA-AT
* * * * *
22446 CTTATTTCAACTTAATTAGAAATTAATTCGGAAAAA-ATAGGAAAAACGATAT---AAGCGTAAA
64 CTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATA-ATGAAAAACGATATGAGAAGCGTGAA
** * * * * *
22507 AAACCCTTCAATATTTTTGGCGCTG-AATTATATATATATCTCTATGAGTATTTTA-GCTAAAAA
128 AAGTCCTCCAATA-TTTTGGAG-TGAAATTATATATAT-T-AC-ACGAGTATATTAGGC-AAAAA
** * * * * * * *
22570 TTTTCGGAAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCATGTACTAACCTTCA
187 -TTGAGGAAAAATTTTTCGGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCA
* * * *
22635 CGATTTTTTTTGCTAAAAACGTG-TTCTGGGGCCCCGACTCAGTTCTGCATGATTTTCAGCGTCA
251 CGA--TTTTTTGCTAAAAACGCGTTTC-GGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCG
*
22699 AGACTCGTTCAAATATCT
313 AGACTCCTTCAAATATCT
* * *
22717 ATATTCATCTAATCAAATCTCATCCACATTGCATTTAAAGCTTTATTTTTACGAGCATCTGAAT-
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTT-AAGATTTGTTTTTACGAGCATCTGAATC
* * *
22781 TTTTTTC-ACTTTAATTAGAAATTAACTCGGAAAAATTAATGAAAAACGATATGAAAAGCGTGAA
65 TTGTTTCGA-TTTAATTAGAAATTAATTCGGAAAAA-TAATGAAAAACGATATGAGAAGCGTGAA
* * * *
22845 AAGTCCTCCAATCATTTTAGAGTTAAATTATATATATTAGACGAGTATATTAGGCAAAAATTGGG
128 AAGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCAAAAATTGAG
* * *
22910 GAAAAAAAATTTTCAGATCACTTTTTCT-CAGAAA-TTTAGCCGAAATCGTGTAATAACCATCAC
192 G--AAAAATTTTTCGGATCA-TTTTT-TGCA-AAATTTTAGCCGAAATCGTGTACTAACCATCAC
* *
22973 GATTTTTTTTGCTAAAAACGCGTTTTGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTCGAG
252 GA--TTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGAG
*
23038 CCTCCTTCAAATATCT
315 ACTCCTTCAAATATCT
* * * * **
23054 ATATTCATCTAATCAAATCTCAGTCACATTACATTTAAGGTTTTTTTTTTTTTACGAGCATCCAA
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAA-G---ATTTGTTTTTACGAGCATCTGA
* * * *
23119 ATCTTGTTTCAATCTAATTAGAAATTAATTCGGAAAAAGT-AGGAAAAACGATATTAGAAGCGT-
62 ATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAA-TAATGAAAAACGATATGAGAAGCGTG
** * * * * *
23182 AAAAAACCTTTCAATATTTCTGGCGTTG-AATTATATATATTTCTATGAATAT-TTCA-GCTAAA
126 AAAAGTCC-TCCAATATTT-TGGAG-TGAAATTATATATATTAC-ACGAGTATATT-AGGC-AAA
* * * * *
23244 AATTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAAACATC
185 AATTGAGGAAAAATTTTTCGGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATC
* * * * *
23309 ACGATTTTTT-TTAAAAA-ACGTGTTCTAGGGCCCCGACTCAGTTCTGCATGATTTTCGGCGTCA
250 ACGATTTTTTGCTAAAAACGCGT-TTC-GGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCG
23372 AGACTCCTTCAAATATCT
313 AGACTCCTTCAAATATCT
* * * * * *
23390 ATATTCATCTAGTCAAATCTCAGCCAAATTACATTTAAGTATTTGTTTTTACGAGTATCTAAATT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAG-ATTTGTTTTTACGAGCATCTGAATC
* *
23455 TTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATCAATGAAAAACGATATGAAAAGTGTGAAA
65 TTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAT-AATGAAAAACGATATGAGAAGCGTGAAA
* *
23520 AGTCCTCGAATCATTTTGGAGTGAAATTATATATATCACACGAGTATATTAGGCAAAAATTGAGG
129 AGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCAAAAATTGAGG
*
23585 AAAAATTTTTCGGATCATTTTTTGCAGAATTTTAGCCGAAATCGTGTACGT-----T-ACGATTT
193 AAAAATTTTTCGGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTAC-TAACCATCACGATTT
* * * ** *
23644 TTTGCTAAAAACGCGTTTCGGGGCCCTGACTTAGTTCTGCATAATTTTCAACATCGAGACTCATT
257 TTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGAGACTCCTT
23709 CAAATATCT
322 CAAATATCT
* * * **
23718 ATATTCATTTAATCAAATATCAGCCACATTGCATTGAAGAATTTGTTTTTGGGAGCATCT-ATAT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAG-ATTTGTTTTTACGAGCATCTGA-AT
* * * * *
23782 CTTATTTCAATTTAATTAGAAATTAATTCGGAAAAAGT-A-GGAAAACGATATTAGAAGCGTAAA
64 CTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAA-TAATGAAAAACGATATGAGAAGCGTGAA
** * * * *
23845 AAACCCTTCAATATTTCAGGCGTTG-AATTATATATATCT-CTATGAGTAT-TTCA-GCTAAAAA
128 AAGTCCTCCAATATTT-TGGAG-TGAAATTATATATAT-TAC-ACGAGTATATT-AGGC-AAAAA
* * * *
23906 TTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCAC
187 TTGAGGAAAAATTTTTCGGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCAC
* * * *
23971 -ATTTTTTTTATTCTAAAAACGTGTTAT-GGGGCCCCGACTCAATTCTGCATGATTTTCGGCGTC
252 GA---TTTTT-TGCTAAAAACGCGTT-TCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATC
*
24034 GAGACTCCTTCAAATATAT
312 GAGACTCCTTCAAATATCT
* * *
24053 ATATTCATC-AAGTCAAATCTCAGTCAAATTGCATTTAAGTTTTTGTTTTTACGAGCATCTGAAT
1 ATATTCATCTAA-TCAAATCTCAGCCACATTGCATTTAAG-ATTTGTTTTTACGAGCATCTGAAT
* * * *
24117 CTTATTTCGATTTAATT-GGAATTAAATTCGGAAAAATTAATGAAAAACAATATGAGAAGTGTGA
64 CTTGTTTCGATTTAATTAGAAATT-AATTCGGAAAAA-TAATGAAAAACGATATGAGAAGCGTGA
*
24181 AAAGTCCTCCAATCATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCCAAAATTGA
127 AAAGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCAAAAATTGA
* * * * * *
24246 GGAAAAATTTTTCGGATCATTTTTTGTAGAATTTTCGCCGAAATCGTGTACTTATCATCACGAAT
191 GGAAAAATTTTTCGGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATT
* * *
24311 TTTCGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGAATTTCGGTATCGAGACTCCT
256 TTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGAGACTCCT
*
24376 TCAAGTATCT
321 TCAAATATCT
* * * *
24386 ATATTCATCTAGTCAAATCTCAGCCAAATTGCATTTAAGTTTTTGTTTTTACGAGCATCTAAAAT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAG-ATTTGTTTTTACGAGCATCT-GAAT
* * * * *
24451 CTTATTTCGATTTAATGAG-AATTAAATTCGGAAAAGTTAATGAAAAACGATATGAAAAGTGTGA
64 CTTGTTTCGATTTAATTAGAAATT-AATTCGGAAAA-ATAATGAAAAACGATATGAGAAGCGTGA
**
24515 AAAGTTATCCAATCATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCAAAAATTGA
127 AAAGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCAAAAATTGA
* * *
24580 GGAAAAATTTTTCGGATAATTTTTTACAGAATTTTAGCCGAAATCGTGTACTAACTATCACGATT
191 GGAAAAATTTTTCGGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACT-A--A-C-C-A--
* * * *
24645 TTTTGACGATTTTTTGCTAAAAACGCGTTTCGGGGTCCTGACTCAGTTCTGCATGATTTTCGGTA
248 ---TCACGATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCA
24710 TCGAGACTCCTTCAAATATCT
310 TCGAGACTCCTTCAAATATCT
* *
24731 ATATTCATCTGATAAAATCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCT-ATAT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAG-ATTTGTTTTTACGAGCATCTGA-AT
* * * * *
24795 CTTATTTCAACTTAATTAGAAATTAATTCGGAAAAAGT-AGGAAAAACGATATTAGAAGCGTGAA
64 CTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAA-TAATGAAAAACGATATGAGAAGCGTGAA
** * * ***** *
24859 AAACCCTTCAATATTTATGGCGT-AGAATTATATATATCTTTTTTAGTAT-TTCA-GCTAAAAGT
128 AAGTCCTCCAATATTT-TGGAGTGA-AATTATATATAT-TACACGAGTATATT-AGGC-AAAAAT
* * * *
24921 TGAGGAAATATCTTACGGGTCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACG
188 TGAGGAAAAATTTTTCGGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACG
* * * * * *
24986 ATTTTTTTTTTTTCTAAAAACGTGTTTCGGGGCCCCGGCTCAGTTGTGCATGATTTTCGGCGTCA
253 A-----TTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCG
* *
25051 AGACTCCTTCGAATATAT
313 AGACTCCTTCAAATATCT
* * *
25069 ATATTCATC-AAGTCAAATCTCAGCCAAATTGCATTTAAGTTTTGTTTTTACGAGCATCTAAATC
1 ATATTCATCTAA-TCAAATCTCAGCCACATTGCATTTAAGATTTGTTTTTACGAGCATCTGAATC
* * **
25133 TTGTTTCGACTTAATT-GGAATTAAATTCGGAAAAAGTAATGAAAAATAATATGAGAA-CTGTGA
65 TTGTTTCGATTTAATTAGAAATT-AATTCGGAAAAA-TAATGAAAAACGATATGAGAAGC-GTGA
*
25196 AAAGTCCTCCAATCATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCGAAAATTGA
127 AAAGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCAAAAATTGA
* * *
25261 GGAAAAATTTTTCGGATCATTTTTTACAGAATTTTAGCCGAAATCGTGTACTAACCATAACGATT
191 GGAAAAATTTTTCGGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATT
25326 TTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGAGACTCCT
256 TTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGAGACTCCT
25391 TCAAATATCT
321 TCAAATATCT
* * * *
25401 ATATTTATCTAATAAAATCTCAGCAACATTGCATTTAAGAATTTGTTTTTACGAGCGTCT-ATAT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAG-ATTTGTTTTTACGAGCATCTGA-AT
* * * * * *
25465 CTTATTTCAACTTAATTAGAAATTAATTCGGAAAAAGT-A-GGAAAACGATATTAGAAGCGTAAA
64 CTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAA-TAATGAAAAACGATATGAGAAGCGTGAA
** * * * *
25528 AAACCCTTCAATATTTCTGGCGGTG-AATTA-ATATATCTATAAGAGTA-ATTCA-GCTAAAAAT
128 AAGTCCTCCAATATTT-TGG-AGTGAAATTATATATAT-TACACGAGTATATT-AGGC-AAAAAT
* * *
25589 TGAGGAAATATCTTTCAGG-TCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACGGTGTACTCA
188 TGAGGAAAAATTTTTC-GGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTAC----TA---A
* * * * *
25653 CCATCACGATTTTTTGCTAAAAACACGTTTCGGGGCACTGACTCTGTTCTGCATGATTTTCGGCT
245 CCATCACGATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCA
** *
25718 TCGAGACTATTTCAAGTATCT
310 TCGAGACTCCTTCAAATATCT
* * * * * *
25739 ATATTCATCTAGTCAAATTTCAGCCAAATTGCATTTATGTTTTGTTTTTACGAGAATCTGAATCT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGATTTGTTTTTACGAGCATCTGAATCT
* * * *
25804 TGTTTCGATTTAATTTGAAATTAATACCGAAAAATCAATGAAAAACGATATGA-AACGAGTGAAA
66 TGTTTCGATTTAATTAGAAATTAATTCGGAAAAAT-AATGAAAAACGATATGAGAA-GCGTGAAA
*
25868 AGTCCTCCAATCATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCGAAAATTGAGG
129 AGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCAAAAATTGAGG
* * *
25933 AAAAATTTTTCGGATCATTTTTTTACAGAATTTTAGCCGAAATCGTATACTAACCATCACGATTT
193 AAAAATTTTTCGGATCA-TTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTT
*** * *
25998 TTTGCTAAAAACATTTTTTGGGGCCCCGGCTCAGTTCTGCATGATTTTCGGCATCGAGACTCCTT
257 TTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGAGACTCCTT
26063 CAAATATCT
322 CAAATATCT
*
26072 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGAATTT-TTTTTACGAGCGTCT-ATAT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAG-ATTTGTTTTTACGAGCATCTGA-AT
* * * *
26135 CTTATTTCAACTTT-ATTAGAAATTAATTC-GAAAAA-AATAGGAAAAACGATATTAGAAGCGTA
64 CTTGTTTCGA-TTTAATTAGAAATTAATTCGGAAAAATAAT--GAAAAACGATATGAGAAGCGTG
** * * *
26197 AAAAACCCTTCAATATTTATGGCGTTG-AATTATATATATCT-CTATGAGTAT-TTCA-GCTAAA
126 AAAAGTCCTCCAATATTT-TGGAG-TGAAATTATATATAT-TAC-ACGAGTATATT-AGGC-AAA
*
26258 AATTGAGGAAAAATTTTTCGTG-TCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTACACCA
185 AATTGAGGAAAAATTTTTCG-GATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTA-ACCA
* * * *
26322 TCACGATTTTTTTGCTGAAAACGCGTTAT-GGGGCACTGGCTCAGTTCTGCATGATTTTCGGCAT
248 TCACGA-TTTTTTGCTAAAAACGCGTT-TCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCAT
26386 CGAGACTCCTTCAAATATCT
311 CGAGACTCCTTCAAATATCT
* *
26406 ATATTCATCTAATCAAATCTCATCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTCAATC
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAA-GATTTGTTTTTACGAGCATCTGAATC
* * *
26471 TTGTTTCGATTTAATTAGAAATTAATACCGAAAAATTAATGAAAAACGATATGA-AACGAGTGAA
65 TTGTTTCGATTTAATTAGAAATTAATTCGGAAAAA-TAATGAAAAACGATATGAGAA-GCGTGAA
* *
26535 AAGTCCTCCAATCATTTTGGAGTGAAATTATATATATTACACAAGTATATTAGGCGAAAATTGAG
128 AAGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCAAAAATTGAG
* * *
26600 GAAAAAATTTTCGGATCATTTTTTACAGAATTTTAGCCGAAATCGTGTACTAACCATCACGATTT
192 GAAAAATTTTTCGGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGA-TT
* * *
26665 TTTTGCTAAAAACGCGTTTCGTGGCCCCG-CTCAGTTCTGCATGATTTTCGGTATCGAGACTACT
256 TTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGAGACTCCT
26729 TCAAATATCT
321 TCAAATATCT
* *
26739 ATATTCATTTAATCAAATCTCAGCCACATTGCATTTAAGTTATTTGTTTTTACGAGCGTCTGAAT
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAG--ATTTGTTTTTACGAGCATCTGAAT
* * *
26804 CTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATTAATGAATAACGATATGA-AATGTGTGA
64 CTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAA-TAATGAAAAACGATATGAGAA-GCGTGA
*
26868 AAAGTCCTCCAATCATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGTAAAAATTGA
127 AAAGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCAAAAATTGA
* * * * *
26933 GGAAATATCTTTC-GACTCAATTTTTGCAGAATTTTAGCCGAAATCGTGTACGGTGTA-CATCAC
191 GGAAAAATTTTTCGGA-TCATTTTTTGCAAAATTTTAGCCGAAATCGTGTAC--T-AACCATCAC
* * * * * *
26996 GATTTTTTGCTGAAAACGCGTTTCGGGGCACTGACTTAGTTCTGGATGATTTTCGGCTTCGAGAC
252 GATTTTTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGAGAC
** *
27061 TATTTCAAGTATCT
317 TCCTTCAAATATCT
* * * * *
27075 ATATTCATCTAGTCAAATTTCAGCCAAATTGCATTTAAGTTTTTGTTTTTACGAGCTTCTGAATC
1 ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAG-ATTTGTTTTTACGAGCATCTGAATC
* * * *
27140 TTGTTTCGATTTAATTAGAATTTAATTCGGAAAAATTAATGAAAAATGATATGAAAAGTGTGAAA
65 TTGTTTCGATTTAATTAGAAATTAATTCGGAAAAA-TAATGAAAAACGATATGAGAAGCGTGAAA
*
27205 AGTCCTCCAATCATTTTGGAGT-AAATTATATATATCACACGAGTATATTAGGCAAAAATTGAGG
129 AGTCCTCCAAT-ATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCAAAAATTGAGG
* * * *
27269 AAAAATTTTTCGGGT-ATTTTTTGCAGAATTTTAACCGAAATCGTGTACTAACCATTC-CCATTT
193 AAAAATTTTTCGGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCA-TCACGATTT
* * * * **
27332 TTTGCTAAAAACGCGTTTCGTGGCACTGACTCAGTTCTGCATGATTTTCGGCTTCGAGACTATTT
257 TTTGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGAGACTCCTT
*
27397 CAAGTATCT
322 CAAATATCT
27406 A
1 A
27407 CATT
Statistics
Matches: 5398, Mismatches: 726, Indels: 498
0.82 0.11 0.08
Matches are distributed among these distances:
325 4 0.00
326 48 0.01
327 67 0.01
328 141 0.03
329 11 0.00
330 22 0.00
331 182 0.03
332 325 0.06
333 808 0.15
334 1041 0.19
335 636 0.12
336 338 0.06
337 374 0.07
338 371 0.07
339 371 0.07
340 261 0.05
341 70 0.01
342 9 0.00
343 52 0.01
344 91 0.02
345 174 0.03
346 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (330 bp):
ATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGATTTGTTTTTACGAGCATCTGAATCT
TGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAATGAAAAACGATATGAGAAGCGTGAAAAG
TCCTCCAATATTTTGGAGTGAAATTATATATATTACACGAGTATATTAGGCAAAAATTGAGGAAA
AATTTTTCGGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTG
CTAAAAACGCGTTTCGGGGCCCCGACTCAGTTCTGCATGATTTTCGGCATCGAGACTCCTTCAAA
TATCT
Done.