Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01008161.1 Kokia drynarioides strain JFW-HI SEQ_122820, 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: 59870
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Found at i:903 original size:428 final size:429
Alignment explanation
Indices: 1--6437 Score: 5953
Period size: 428 Copynumber: 14.9 Consensus size: 429
* * * * * * * *
1 TGAATATTCTCAAGAACCAAAGTTATAAAAGAACTCGTAATTGTTTGACAAGTTTGAAAGTTC--
1 TGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGT
* * * *
64 CCAAGAACCAAAAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCACAAGTTATT
66 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA---TTTAATTCAAAGACCAAAAGTTGTT
* * * * * * * *
129 TACAAAATAACAAACTTTTTGGACCAAGTGATACTATTTCCTGAGCATGGAATATTCTG-AAAAT
128 TACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-GAAAAAT
* * * * * *
193 TGGACGAAGAAATGGATCATCTTGAACACTTTAAGGAACCGAAGATATAAAAGAACTCAAAAATG
192 TGGTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAATG
* * * * *
258 TTTGACAAGTTC-AGAAGTTCATCCAAGATCCAACAAAGAAACAATTCTCATGTAAATAAGTTTT
257 TTTGACAAGTTCGA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * ** * * * *
322 TAATTCAAAAACCAAGAGTCATTTACAAAATGACAAACTTTTTAGACCAAATGATGCAAATCCT-
321 TAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTC
* ** * * *
386 GAGCATATAATGTTCGGAAAATTGGTCGAGGGAATGGATCGCCT
386 GAGAATGGAATGTTCGAAAAATTGGTCGAAGGAATGGATCGTCT
* * * * * **
430 TGAACT-CTCTCAGGAACCAAAGTTATAAAAGAACTCGTAAAATGTTTGACAATTTTGGGTGTTC
1 TGAA-TACTCTCAGGAATCGAAGTTATAAAAGAACTCAT-AAATGTTTGACAAGTTCGGAAGTTC
* * * *
494 GTTCAAGAATCAAGAGAGAAACAATTATCACGTAAATAA-TTAATTCAAAGAACAAAAGTTGTTT
64 GTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAATTTAATTCAAAGACCAAAAGTTGTTT
* * * * * *
558 ACAAAATGAGAAACTATATAGATCAAATGATGCGACTTCCCAAGCATGGAATGCTCGAAAAATTG
129 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTG
* * * * *** *
623 CTCAAAGAAATGGATCGTCATT-AATACTTTAAGGTATTTAAGTTATAAAAGAACTCATAAATTT
194 GTCGAAGGAATGGATCGTC-TTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAATGT
* * * *
687 TTGACAAGATCGAAAGTTTGTCCAAGATA-CAAGAGAGAAATAATTCTCACGTAAATAAGTTTTA
258 TTGACAAGTTCGAAAGTTCGTCCAAGA-ACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * *
751 AATTCAAAAACCAAAAGTTGTTTACAAGATGAAAAACTACTTT-GACCAAATGATGCGATTTCTC
322 AATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TTTAGACCAAATGATGCGATTTCTC
* * * *
815 AAGAATGGAATGCTCAAAAAATTGGTCAAAGGAATGGATCGTCT
386 GAGAATGGAATGTTCGAAAAATTGGTCGAAGGAATGGATCGTCT
* * * * *
859 TGAATACTCTCAGAAATCGAAGTTAGAAAAGAACTCATAAATGTTTGACAAGTTCAGAAATTTGT
1 TGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGT
* * *
924 CCAAGAACCAATAGAGAAACAATTCTCATGTAAATAAGTTTTAAATTCAAAGACGAAAAGTTGTT
66 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA--TTT-AATTCAAAGACCAAAAGTTGTT
* ** * * * *
989 TAC-AGATGGA-AAACTATTTTTACCAAATGATTCCATTTTACCGAGAATGGAATGTTCGAAAAA
128 TACAAAAT-GACAAACTATTTAGACCAAATGATGCGA-TTTCCCGAGCATGGAATGTTCGAAAAA
* * * * * * * *
1052 TTGGTCAAAGGAATGGATCTTCTTAAATA-TTCTCAGGAATCAAAGTTATAAACA-AACTCCTAT
191 TTGGTCGAAGGAATGGATCGTCTTGAATACTT-TAAGGAACCGAAGTTATAAA-AGAACTCATAA
* * * * * *
1115 ATGTTTGAGAGGTTC-AGAAGTTCGTCCAAGAACCAAAAAAGAAATAATTCTCATGTAAATAAGT
254 ATGTTTGACAAGTTCGA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
* * *
1179 TTTTAATT-GAAGCACCACAAGTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGATT
318 TTTTAATTCAAAG-ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATT
** * * * *
1243 TC-CTGATCATGGAATGTTCAAAAAACTAGAT-GAAGGAATGGTTCGTCT
382 TCTC-GAGAATGGAATGTTCGAAAAA-TTGGTCGAAGGAATGGATCGTCT
* * * * * * *
1291 TGAATGCTTTAAGGAACCGAAGTTATAAAAGAACTCAAAAATGTTTGACATGTTCGGAAGTTTGT
1 TGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGT
* * * * *
1356 CAAAGAACCAATA-ATGAAACAATTCTCACGTAAA-AAGTTTTTAATTCAAAAACCAAAAGCTAT
66 CCAAGAACCAAGAGA-GAAACAATTCTCACGTAAATAA---TTTAATTCAAAGACCAAAAGTTGT
* * *
1419 TTACAAAATGACAAACTATTTAGACCAAATAATGCAACTTCCCGAGCATGGAATGTTCGAAAAAT
127 TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
* *
1484 TGGTCGAAGGAATGGATCGTCTTGAATACTTTAAAGAACCGAAGTTATAAAAGAACTCTTAAATG
192 TGGTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAATG
* * * * * **
1549 TTTAACATGTTC-AGAAGTTTGCCCAAGAA-AAAGAGAGAAACAATTCTCACCAAAATAAGTTTT
257 TTTGACAAGTTCGA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * * * *
1612 TAATTTAAATACTAAAAAGTT-TTATACAAAATGACAAACTATTTAGA-CAAATGCTGCGAATTA
321 TAATTCAAAGAC-CAAAAGTTGTT-TACAAAATGACAAACTATTTAGACCAAATGATGCG-ATTT
* * * *
1675 C-CGAGAATGAAATGTTCAAAAAATTGTTCGAAGGAATGGATTGTCT
383 CTCGAGAATGGAATGTTCGAAAAATTGGTCGAAGGAATGGATCGTCT
* * * * * * *
1721 TGAATACTTTAAAGAATTGAAGTTTTAAAAGAACTCGTAAA-GTTTGACATGTTCGGAAGTTCGT
1 TGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGT
* * * * *
1785 CCAAGAACAAAGAGAGAAACAATTCTAATGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTT
66 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA---TTTAATTCAAAGACCAAAAGTTGTT
* * * * *
1850 TACAAAATGACAAACTGTTCAGACCAAATGATGTGATTTCCCTAGCATAGAATGTTCGAAAAATT
128 TACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATT
* * * * * * * *
1915 GCTCGAAGGAATGGTTTC-TATTGAATTCTTTACGGAACCAAAGTTATAAAAGAATTCATAAAAG
193 GGTCGAAGGAATGG-ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAATG
* * * **
1979 TTTGACAAGTTTGGAAGTTTG-GAAAGAACCAAGAGAGAAACAATTCTCACGTAAAT-A-TTTTT
257 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * ** * *
2041 AAATT-AAAGACCAAAGGTTGATTACAAAATGACAAACTATTTAGACCAAATGACACAATTTTTC
322 -AATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTC
* * * *
2105 GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATTGTCC
386 GAGAATGGAATGTTCGAAAAATTGGTCGAAGGAATGGATCGTCT
* * * * * * * * ** *
2149 TGAATGCTTTAAGGAA-CGAAAGTTATCAAAGGACTCAAAAAAGCTTGACAAGCACGAAAGTTCG
1 TGAATACTCTCAGGAATCG-AAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCG
* * *
2213 GCCAAGAACTAAGAGCGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
65 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA---TTTAATTCAAAGACCAAAAGTTGT
* * * ** * *
2278 TTACAAAATGAAAAACTACTTT-TACCAAATGATGCGATTTCCCTAAAATGGAATTTTCAAAAAA
127 TTACAAAATGACAAACTA-TTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAA
* * * *
2342 TTGGTCGAAGGAATGGATTGTCTTGAATACTCTCAA-GAATCGAAGTTATAAAAGAACCTGA-AA
191 TTGGTCGAAGGAATGGATCGTCTTGAATACT-TTAAGGAACCGAAGTTATAAAAGAA-CTCATAA
* * * * * *
2405 ATATTTCACAAATTTGGAAGTTCGTCCAAGAACCAAGACAGAAACAATTCTCACGTAAATAA---
254 ATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * * * * * * *
2467 -TTAATTCAAAGACCAAAAGTTGTTTGCAAAATGACACAGTATTTAGATCAAATAATTCAACTTC
319 TTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTC
* * * *
2531 CCGAGCATGAAATGTTCGAAAAATTGGTCAAAGGAATGGATCGTCT
384 TCGAGAATGGAATGTTCGAAAAATTGGTCGAAGGAATGGATCGTCT
* * * * ***
2577 TGAATACTCTCAAGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCAGAAGTTTAC
1 TGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGT
* * * * * *
2642 CCAAGAA-CTAGAGAGAAACAATTCTCACGTAAATATGTTTTTAATTTAAAGGCTAAAAGTTTTT
66 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA---ATTTAATTCAAAGACCAAAAGTTGTT
* * * ** *
2706 TAAAAAATGACAAACTATTTAGA-CAAATGTTGTGATTTATCGAGAATGGAATGTTCGAAAAATT
128 TACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATT
** * * * *
2770 ATTCGAAGGAATGGATTGTCTTGAATACTTTAAAGAACTGAAGTTTTAAAAGAACTCATAAATGT
193 GGTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAATGT
** * * * ** *
2835 TTGACATTTTTGGAAGTTCGTCCAAGAACAAATTGAGAAACAATTCTAACGTAAATAAGTTTTTA
258 TTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
* * * * * *
2900 ATTCAAAGATCAAAAGTTGTTTACAAAATGACAAATTGTTTAGGCCAAATGATGTGATTTC-CAA
323 ATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTC-G
* * * * * * * *
2964 AGCATAGAATGTTTGCAAAATTGCTTGAAGGAATGGATCCTAT
387 AGAATGGAATGTTCGAAAAATTGGTCGAAGGAATGGATCGTCT
* * * * *
3007 TGAATTCTTTAAGGAA-CAGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTGGAAGTTCG
1 TGAATACTCTCAGGAATC-GAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCG
** * * * * *
3071 -AAAAGAACCAAGACAGAAACAATTCTCACGTAAATATTTTTAATTTAAAGACCAAAGGTTGATT
65 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA-ATTTAATTCAAAGACCAAAAGTTGTTT
* ** * * *
3135 AAAAAATGACAAACTATTTAGACCAAATGATGCGATTTTTCGAGAATGGAAAGTTTGAAAAATTG
129 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTG
* * * * * ** * * *
3200 CTCGAAGGAATGGATTGTCCTGAATGCTTTAAGGAGCAAAAGTTATAAAAGGACTCATAAAAGCT
194 GTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAATGTT
** * ** * *
3265 TGACAAGCGCGAAATTTCGGACAAGAACTAAGAGATAAACAATTCTCACGTAAATATA-TTTTTA
259 TGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA-AGTTTTTA
* * * * * *
3329 ATTCAAAGAGCAAAAGTTGTTTACAAAATGACAAACTACTTT-TATCAAATGATGCAATTTCCCT
323 ATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TTTAGACCAAATGATGCGATTTCTCG
* * * *
3393 AGAATGGAATTTTCAAAAAATTGGTGGAAGGAATGGATCGTTT
387 AGAATGGAATGTTCGAAAAATTGGTCGAAGGAATGGATCGTCT
* * * * * *
3436 TGAATACTGTCAAGAATCGAACTTATAAAAGAAC-CTGTAAATGTTTGACAAATTCGGAAGTTTG
1 TGAATACTCTCAGGAATCGAAGTTATAAAAGAACTC-ATAAATGTTTGACAAGTTCGGAAGTTCG
3500 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA-TTAATTCAAAGACCAAAAGTTGTTTA
65 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAATTTAATTCAAAGACCAAAAGTTGTTTA
* * * * *
3564 CAAAATGACAAACTATTTAGACCAAATAATGCAACTTCCCGAGAATGGAATGTT-TAGAAAATTG
130 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAATTG
* * * *
3628 GTTGAAGGAATGGATCATCTTGAATACTCTCAA-GAACCGAAGTTATAACAA-AACTCGTAAATG
194 GTCGAAGGAATGGATCGTCTTGAATACT-TTAAGGAACCGAAGTTATAA-AAGAACTCATAAATG
* *
3691 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAACAGAGAAACAATTCTCACGTAAATAAGTTTTT
257 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * * * * *
3756 AATTCAAAAACCAAGAGTTGTTTACCAAATGACAAACTTTTTAAACCAAATGATGTGATTCCT-A
322 AATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCG
* * * *
3820 AGCATGTAATGTTCGGAAAATTGGTCG-AGGAATGGATCGCCT
387 AGAATGGAATGTTCGAAAAATTGGTCGAAGGAATGGATCGTCT
* * * * * * *
3862 TGAATTCTTTCAGGAATCAAAGTCATAAAAGAACTCGTAAATGTTTGACAAGTTTGGATGTTCGT
1 TGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGT
* * *
3927 TCAAGAACCAAGAGAGAAACAATTATCACGTAAATAA-TTATTTCAAAGACCAAAAGTTGTTTAC
66 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAATTTAATTCAAAGACCAAAAGTTGTTTAC
* * * * * * * *
3991 AAAATGAGAAACTATATAGGCCAAATGATGCGACTTCCAGAGCAAGGAATGCTCGAAAAATTGCT
131 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGT
* * * *
4056 CAAAAGAATGGACCGTCTTTAATACTTTATGGAACCGAAGTTATATACTTTATGGAACCGAAGTT
196 CGAAGGAATGGA---TC----GT-C--T-T---------G--A-ATACTTTAAGGAACCGAAGTT
* * * *
4121 ATAGAAGAACTCATAAATGTTTGACAAGATCGGAAGTTCGTCCAAGATCCAAGAGAGAAACAATT
238 ATAAAAGAACTCATAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATT
* * * * *
4186 CTCACATAAATAAGTTTTTAATTCAAAAATCAAAAGTTATTTACAAGATGGA-AAACTACTTT-G
303 CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAAT-GACAAACTA-TTTAG
* * * * * *
4249 ACTAAATGATGCGATTTCTCAAGAATGGAATGTTTGGAAAATTTGTCGAAGGAATGGATTGTCT
366 ACCAAATGATGCGATTTCTCGAGAATGGAATGTTCGAAAAATTGGTCGAAGGAATGGATCGTCT
* * * *
4313 TGAGTACTCTCAGGAATCGAAGTTAGAAAAGAACTAATAAATGTTTGACAAGTTCGGAAGTTCAT
1 TGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGT
*
4378 CCAAGAACCAATG-GAGAAACAATTCTCACGTTAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
66 CCAAGAACCAA-GAGAGAAACAATTCTCACGTAAATAA---TTTAATTCAAAGACCAAAAGTTGT
* ** * * * * * * * *
4442 TTAC-AGATGACAAACTATTTTTACCAAATGATTCCATTTTACTGAGAACGGAATGTTTGGAAAA
127 TTACAAAATGACAAACTATTTAGACCAAATGATGCGA-TTTCCCGAGCATGGAATGTTCGAAAAA
* * * * * ** *
4506 TTTGTCGAAGGAATGGATCGTCTTGGATACTCTCATGAGTCGAAGTTATAAAAGAACTCGTAAAT
191 TTGGTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAT
* * * * * *
4571 GTTTGAGAGGTT-TAGAAGTTCGTCCAAGAACCAAAAGAGAAATAATTCTCATGTAAATAAGTTT
256 GTTTGACAAGTTCGA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
* * * * *
4635 TTAAATCAAACACCACAAGTTGTTTACAAAATGACAAACTATTTAAACCAAATGATGGGATTTC-
320 TTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCT
* * * * *
4699 CTAAGCAA-GGAATGTTCGAAAAATTAGACGAAGGAATGGTTCATCT
385 C-GAG-AATGGAATGTTCGAAAAATTGGTCGAAGGAATGGATCGTCT
* * * * * * *
4745 TGAATGCTTTAAGGAACCGAAGTTATAAAAGAACT-TTAAAATGTTTGACATGTTCGGAAGTTTG
1 TGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCAT-AAATGTTTGACAAGTTCGGAAGTTCG
* * * * * *
4809 TCCAACAACCAACA-ATGAAACAATTTTCACGTAAAAAAGTTTTTAATTCAAAAACCAAAAGTTA
65 TCCAAGAACCAAGAGA-GAAACAATTCTCACGTAAATAA---TTTAATTCAAAGACCAAAAGTTG
* * * * * * * *
4873 TTTTCAAAACGACAAAATTTTTAGACCAAATGAAGCGA-TTCTCGAGCTTGGAATGTTCAAAAAA
126 TTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAA
* * * **
4937 TTTGTCGAAGGAATGGATCGTCTTGAATACTCTCAA-GAATCGAAGTTATAAAAGAACTTGTAAA
191 TTGGTCGAAGGAATGGATCGTCTTGAATACT-TTAAGGAACCGAAGTTATAAAAGAACTCATAAA
* * *
5001 TGTTTGACAAATTCGAAAGTTTGTCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAA----
255 TGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
* *
5062 TTAATTCAAAGACAAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGACTTCT
320 TTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCT
* *
5127 CGAGCATGGAATGTT-AAACAAATTGGTCGAAGGAATGGATCGTCT
385 CGAGAATGGAATGTTCGAA-AAATTGGTCGAAGGAATGGATCGTCT
* * * * * ** * *
5172 TGAATGCACTCAAGAACCAAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTTAGAAGTTTGC
1 TGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGT
* * * * *
5237 CCAAGAA-CAAGAGAGAAATAATTCTCATGTAAATATGTTTTTAATTTAAAGACTAAAAGTTGTT
66 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA---ATTTAATTCAAAGACCAAAAGTTGTT
* * * * *
5301 TACAAAATAACAAACTATTTAGACCAAATGCTGCGATTTGCCGAGAATGGAGTGTTCGAAAAATT
128 TACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATT
* * * * * *
5366 GGTCGAAGGAATGTG-TTGTCCTGAATGCTTTAAGGAACGGAAGTTATAAATGAACTCATAAAAG
193 GGTCGAAGGAATG-GATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAATG
* ** * * * * *
5430 CTTGACAAGCGCGGAAGTTTGGCCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAATTTTT
257 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * *
5495 TATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTACTTT--TCC----CA---GATTTCCC
322 AATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TTTAGACCAAATGATGCGATTTCTC
* * * *
5551 AAGAATGGAATGCTCGAAAAATTGGTTGAAAGAATGGATCGTCT
386 GAGAATGGAATGTTCGAAAAATTGGTCGAAGGAATGGATCGTCT
* * ** * *
5595 TGAATACTCTCAAGAATTGAAGTTATAAAAGAACTCGA-AAACATTTGACAAGTTTGGAAGTTTG
1 TGAATACTCTCAGGAATCGAAGTTATAAAAGAACTC-ATAAATGTTTGACAAGTTCGGAAGTTCG
* * * * * *
5659 TCCAAGAGCCAAGAGAGAAACAATTCTTATGTAAATAAGTTTTAAATTCAGAGAACAAAAGTTCT
65 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA--TTT-AATTCAAAGACCAAAAGTTGT
* * *
5724 TTACAAAATGACAAACTATTTGGACCAAATGATGCGACTTT-TCGAGCATGGAATGTTTG-AAAA
127 TTACAAAATGACAAACTATTTAGACCAAATGATGCGA-TTTCCCGAGCATGGAATGTTCGAAAAA
* * ** *
5787 TTGATCGAAGGAATGGATCGTCTTGAATACTATCAA-GAACTAAAGTTATAAAAAGAAC-GAGTA
191 TTGGTCGAAGGAATGGATCGTCTTGAATACT-TTAAGGAACCGAAGTTAT-AAAAGAACTCA-TA
* *
5850 AAGGTTTGACAAGTTC-AGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAG
253 AATGTTTGACAAGTTCGA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
*
5914 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGGTT
317 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATT
* * * *
5979 TC-CTGAGAATGTAATGTTCAAAAAATTGGTTGAAGAAATAGATCGAAGGAATGGCTCATCT
382 TCTC-GAGAATGGAATGTTCGAAAAA----TT---G-----G-TCGAAGGAATGGATCGTCT
* ** * * * ** ** *
6040 TGAATACTCTTAGGAATTAAAGTTATAAAAAAACT-AGCAAATGTTTCACAAGTTCAAAAAATCT
1 TGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCA-TAAATGTTTGACAAGTTCGGAAGTTCG
* * * * *
6104 TCCAAGAACTAAGAGAGAAATAGTTCTCATGTAAATAAGTTTTTAATTCAAAGACCGAAAGTTGT
65 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA---TTTAATTCAAAGACCAAAAGTTGT
* * * * **
6169 TAACAAAATGACAAACTATTTTGACCAAATAATGTGATTTCCCGAGCATGGAATGTTCGGTAAAT
127 TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
* * * * * * * * *
6234 TGCTCGAAAGAATAGATTGACTTGAATACTTTATGGAACTGAAGTTATAAAAGAACTCGTAAAAG
192 TGGTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAATG
* * *
6299 TTTGACAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACTTAAATAAGTTTTT
257 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * *
6364 AATTCAAAGACCAAAAGTTGGTTAGAAAATTAAAAACTATTTAGACTC-AATGATGCGATTTCTC
322 AATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGAC-CAAATGATGCGATTTCTC
*
6428 GAGCATGGAA
386 GAGAATGGAA
6438 ATGTGAGCTC
Statistics
Matches: 4930, Mismatches: 888, Indels: 364
0.80 0.14 0.06
Matches are distributed among these distances:
422 1 0.00
423 148 0.03
424 201 0.04
425 11 0.00
426 401 0.08
427 397 0.08
428 775 0.16
429 643 0.13
430 552 0.11
431 373 0.08
432 678 0.14
433 31 0.01
434 1 0.00
435 1 0.00
436 3 0.00
437 1 0.00
439 1 0.00
443 1 0.00
444 5 0.00
445 301 0.06
446 48 0.01
447 1 0.00
448 6 0.00
449 137 0.03
450 29 0.01
451 99 0.02
452 3 0.00
454 24 0.00
455 58 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (429 bp):
TGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGT
CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAATTTAATTCAAAGACCAAAAGTTGTTTAC
AAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGT
CGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAATGTTTG
ACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATT
CAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGAA
TGGAATGTTCGAAAAATTGGTCGAAGGAATGGATCGTCT
Found at i:1495 original size:215 final size:216
Alignment explanation
Indices: 14--6437 Score: 6252
Period size: 216 Copynumber: 29.8 Consensus size: 216
4 ATATTCTCAA
* * * * * *
14 GAACCAAAGTTATAAAAGAACTCGTAATTGTTTGACAAGTTTGAAAGTTC--CCAAGAACCAAAA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* * * *
77 GAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCACAAGTTATTTACAAAATAACAA
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * * * * * * * *
142 ACTTTTTGGACCAAGTGATACTATTTCCTGAGCATGGAATATTCTG-AAAATTGGACGAAGAAAT
131 ACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-GAAAAATTGGTCGAAGGAAT
* *
206 GGATCATCTTGAACACTTTAAG
195 GGATCGTCTTGAATACTTTAAG
* * * * * *
228 GAACCGAAGATATAAAAGAACTCAAAAATGTTTGACAAGTTCAGAAGTTCATCCAAGATCCAACA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* * * * **
293 AAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAAACCAAGAGTCATTTACAAAATGACAA
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* ** * ** * *
358 ACTTTTTAGACCAAATGATGC-AAATCCTGAGCATATAATGTTCGGAAAATTGGTCGAGGGAATG
131 ACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATG
* * *
422 GATCGCCTTGAACT-CTCTCAG
196 GATCGTCTTGAA-TACTTTAAG
* * * * ** * *
443 GAACCAAAGTTATAAAAGAACTCGTAAAATGTTTGACAATTTTGGGTGTTCGTTCAAGAATCAAG
1 GAACCGAAGTTATAAAAGAACTCAT-AAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAG
* * *
508 AGAGAAACAATTATCACGTAAATAA----TTAATTCAAAGAACAAAAGTTGTTTACAAAATGAGA
65 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * * * * * * *
569 AACTATATAGATCAAATGATGCGACTTCCCAAGCATGGAATGCTCGAAAAATTGCTCAAAGAAAT
130 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAAT
634 GGATCGTCATT-AATACTTTAAG
195 GGATCGTC-TTGAATACTTTAAG
* *** * * * *
656 GTATTTAAGTTATAAAAGAACTCATAAATTTTTGACAAGATCGAAAGTTTGTCCAAGATA-CAAG
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGA-ACCAAG
* * * * *
720 AGAGAAATAATTCTCACGTAAATAAGTTTTAAATTCAAAAACCAAAAGTTGTTTACAAGATGAAA
65 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * * * * *
785 AACTACTTT-GACCAAATGATGCGATTTCTCAAGAATGGAATGCTCAAAAAATTGGTCAAAGGAA
130 AACTA-TTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAA
* *
849 TGGATCGTCTTGAATACTCTCAG
194 TGGATCGTCTTGAATACTTTAAG
* * * * * * *
872 AAATCGAAGTTAGAAAAGAACTCATAAATGTTTGACAAGTTCAGAAATTTGTCCAAGAACCAATA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* * * *
937 GAGAAACAATTCTCATGTAAATAAGTTTTAAATTCAAAGACGAAAAGTTGTTTAC-AGATGGA-A
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAAT-GACA
** * * * * *
1000 AACTATTTTTACCAAATGATTCCATTTTACCGAGAATGGAATGTTCGAAAAATTGGTCAAAGGAA
130 AACTATTTAGACCAAATGATGCGA-TTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAA
* * *
1065 TGGATCTTCTTAAATA-TTCTCAG
194 TGGATCGTCTTGAATACTT-TAAG
* * * * * * * *
1088 GAATCAAAGTTATAAACA-AACTCCTATATGTTTGAGAGGTTCAGAAGTTCGTCCAAGAACCAAA
1 GAACCGAAGTTATAAA-AGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAG
* * * * *
1152 AAAGAAATAATTCTCATGTAAATAAGTTTTTAATT-GAAGCACCACAAGTTGTTTACAAAATGAC
65 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG-ACCAAAAGTTGTTTACAAAATGAC
* * * * * *
1216 AAACTTTTTAGACCAAATGATGCGATTTCCTGATCATGGAATGTTCAAAAAACTAGAT-GAAGGA
129 AAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAA-TTGGTCGAAGGA
* *
1280 ATGGTTCGTCTTGAATGCTTTAAG
193 ATGGATCGTCTTGAATACTTTAAG
* * * * *
1304 GAACCGAAGTTATAAAAGAACTCAAAAATGTTTGACATGTTCGGAAGTTTGTCAAAGAACCAATA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* * *
1369 -ATGAAACAATTCTCACGTAAA-AAGTTTTTAATTCAAAAACCAAAAGCTATTTACAAAATGACA
66 GA-GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * *
1432 AACTATTTAGACCAAATAATGCAACTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAAT
130 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAAT
*
1497 GGATCGTCTTGAATACTTTAAA
195 GGATCGTCTTGAATACTTTAAG
* * * * * * *
1519 GAACCGAAGTTATAAAAGAACTCTTAAATGTTTAACATGTTCAGAAGTTTGCCCAAGAA-AAAGA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
** * * *
1583 GAGAAACAATTCTCACCAAAATAAGTTTTTAATTTAAATACTAAAAAGTT-TTATACAAAATGAC
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC-CAAAAGTTGTT-TACAAAATGAC
* * * * * * *
1647 AAACTATTTAGA-CAAATGCTGCGAATTACCGAGAATGAAATGTTCAAAAAATTGTTCGAAGGAA
129 AAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAA
* *
1711 TGGATTGTCTTGAATACTTTAAA
194 TGGATCGTCTTGAATACTTTAAG
** * * * *
1734 GAATTGAAGTTTTAAAAGAACTCGTAAA-GTTTGACATGTTCGGAAGTTCGTCCAAGAACAAAGA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* * * *
1798 GAGAAACAATTCTAATGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAATGACAA
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * * * * *
1863 ACTGTTCAGACCAAATGATGTGATTTCCCTAGCATAGAATGTTCGAAAAATTGCTCGAAGGAATG
131 ACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATG
* * * *
1928 GTTTC-TATTGAATTCTTTACG
196 G-ATCGTCTTGAATACTTTAAG
* * * * * **
1949 GAACCAAAGTTATAAAAGAATTCATAAAAGTTTGACAAGTTTGGAAGTTTG-GAAAGAACCAAGA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* *
2013 GAGAAACAATTCTCACGTAAAT-A-TTTTTAAATT-AAAGACCAAAGGTTGATTACAAAATGACA
66 GAGAAACAATTCTCACGTAAATAAGTTTTT-AATTCAAAGACCAAAAGTTGTTTACAAAATGACA
** * ** *
2075 AACTATTTAGACCAAATGACACAATTTTTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAAT
130 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAAT
* * *
2140 GGATTGTCCTGAATGCTTTAAG
195 GGATCGTCTTGAATACTTTAAG
* * * * * ** * * *
2162 GAA-CGAAAGTTATCAAAGGACTCAAAAAAGCTTGACAAGCACGAAAGTTCGGCCAAGAACTAAG
1 GAACCG-AAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAG
* *
2226 AGCGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAA
65 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * ** * *
2291 AACTACTTT-TACCAAATGATGCGATTTCCCTAAAATGGAATTTTCAAAAAATTGGTCGAAGGAA
130 AACTA-TTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAA
* *
2355 TGGATTGTCTTGAATACTCTCAA-
194 TGGATCGTCTTGAATACT-TTAAG
* * * * * *
2378 GAATCGAAGTTATAAAAGAACCTGA-AAATATTTCACAAATTTGGAAGTTCGTCCAAGAACCAAG
1 GAACCGAAGTTATAAAAGAA-CTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAG
* *
2442 ACAGAAACAATTCTCACGTAAATAA----TTAATTCAAAGACCAAAAGTTGTTTGCAAAATGACA
65 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * * * * * * * *
2503 CAGTATTTAGATCAAATAATTCAACTTCCCGAGCATGAAATGTTCGAAAAATTGGTCAAAGGAAT
130 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAAT
*
2568 GGATCGTCTTGAATACTCTCAA-
195 GGATCGTCTTGAATACT-TTAAG
* * *** *
2590 GAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCAGAAGTTTACCCAAGAA-CTAGA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* * * * * *
2654 GAGAAACAATTCTCACGTAAATATGTTTTTAATTTAAAGGCTAAAAGTTTTTTAAAAAATGACAA
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * ** * **
2719 ACTATTTAGA-CAAATGTTGTGATTTATCGAGAATGGAATGTTCGAAAAATTATTCGAAGGAATG
131 ACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATG
* *
2783 GATTGTCTTGAATACTTTAAA
196 GATCGTCTTGAATACTTTAAG
* * ** * * **
2804 GAACTGAAGTTTTAAAAGAACTCATAAATGTTTGACATTTTTGGAAGTTCGTCCAAGAACAAATT
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* *
2869 GAGAAACAATTCTAACGTAAATAAGTTTTTAATTCAAAGATCAAAAGTTGTTTACAAAATGACAA
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * * * ** * * * * *
2934 ATTGTTTAGGCCAAATGATGTGATTTCCAAAGCATAGAATGTTTGCAAAATTGCTTGAAGGAATG
131 ACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATG
* * *
2999 GATCCTATTGAATTCTTTAAG
196 GATCGTCTTGAATACTTTAAG
* * * **
3020 GAACAGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTGGAAGTTCG-AAAAGAACCAAGA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* * * * *
3084 CAGAAACAATTCTCACGTAAAT-A-TTTTTAATTTAAAGACCAAAGGTTGATTAAAAAATGACAA
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
** * * * *
3147 ACTATTTAGACCAAATGATGCGATTTTTCGAGAATGGAAAGTTTGAAAAATTGCTCGAAGGAATG
131 ACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATG
* * *
3212 GATTGTCCTGAATGCTTTAAG
196 GATCGTCTTGAATACTTTAAG
* ** * * * ** * * ** *
3233 GAGCAAAAGTTATAAAAGGACTCATAAAAGCTTGACAAGCGCGAAATTTCGGACAAGAACTAAGA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* *
3298 GATAAACAATTCTCACGTAAATATA-TTTTTAATTCAAAGAGCAAAAGTTGTTTACAAAATGACA
66 GAGAAACAATTCTCACGTAAATA-AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * * * * * * *
3362 AACTACTTT-TATCAAATGATGCAATTTCCCTAGAATGGAATTTTCAAAAAATTGGTGGAAGGAA
130 AACTA-TTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAA
* *
3426 TGGATCGTTTTGAATACTGTCAA-
194 TGGATCGTCTTGAATACT-TTAAG
* * * * *
3449 GAATCGAACTTATAAAAGAAC-CTGTAAATGTTTGACAAATTCGGAAGTTTGTCCAAGAACCAAG
1 GAACCGAAGTTATAAAAGAACTC-ATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAG
3513 AGAGAAACAATTCTCACGTAAATAA----TTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
65 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * * * * *
3574 AACTATTTAGACCAAATAATGCAACTTCCCGAGAATGGAATGTT-TAGAAAATTGGTTGAAGGAA
130 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAATTGGTCGAAGGAA
* *
3638 TGGATCATCTTGAATACTCTCAA-
194 TGGATCGTCTTGAATACT-TTAAG
* *
3661 GAACCGAAGTTATAACAA-AACTCGTAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAC
1 GAACCGAAGTTATAA-AAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAG
* * *
3725 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAAACCAAGAGTTGTTTACCAAATGACA
65 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * * ** * *
3790 AACTTTTTAAACCAAATGATGTGA-TTCCTAAGCATGTAATGTTCGGAAAATTGGTCG-AGGAAT
130 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAAT
* * *
3853 GGATCGCCTTGAATTCTTTCAG
195 GGATCGTCTTGAATACTTTAAG
* * * * * * *
3875 GAATCAAAGTCATAAAAGAACTCGTAAATGTTTGACAAGTTTGGATGTTCGTTCAAGAACCAAGA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* * *
3940 GAGAAACAATTATCACGTAAATAA----TTATTTCAAAGACCAAAAGTTGTTTACAAAATGAGAA
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * * * * * * * *
4001 ACTATATAGGCCAAATGATGCGACTTCCAGAGCAAGGAATGCTCGAAAAATTGCTCAAAAGAATG
131 ACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATG
* * *
4066 GACCGTCTTTAATACTTTATG
196 GATCGTCTTGAATACTTTAAG
*
4087 GAACCGAAGTTATATACTTTATGGAACCGAAGTTATAGAAGAACTCATAAATGTTTGACAAGATC
1 GAACCGAAG----------T-T--------A--TA-A-AAGAACTCATAAATGTTTGACAAGTTC
* * * *
4152 GGAAGTTCGTCCAAGATCCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAAATC
43 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* * * * * *
4217 AAAAGTTATTTACAAGATGGA-AAACTACTTT-GACTAAATGATGCGATTTCTCAAGAATGGAAT
108 AAAAGTTGTTTACAAAAT-GACAAACTA-TTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* * * * * * *
4280 GTTTGGAAAATTTGTCGAAGGAATGGATTGTCTTGAGTACTCTCAG
171 GTTCGAAAAATTGGTCGAAGGAATGGATCGTCTTGAATACTTTAAG
* * * *
4326 GAATCGAAGTTAGAAAAGAACTAATAAATGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAATG
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAA-G
* *
4391 -GAGAAACAATTCTCACGTTAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAC-AGATGACA
65 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
** * * * * * * * * *
4454 AACTATTTTTACCAAATGATTCCATTTTACTGAGAACGGAATGTTTGGAAAATTTGTCGAAGGAA
130 AACTATTTAGACCAAATGATGCGA-TTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAA
* * * *
4519 TGGATCGTCTTGGATACTCTCAT
194 TGGATCGTCTTGAATACTTTAAG
** * * * ** *
4542 GAGTCGAAGTTATAAAAGAACTCGTAAATGTTTGAGAGGTTTAGAAGTTCGTCCAAGAACCAAAA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* * * * *
4607 GAGAAATAATTCTCATGTAAATAAGTTTTTAAATCAAACACCACAAGTTGTTTACAAAATGACAA
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * ** * * *
4672 ACTATTTAAACCAAATGATGGGATTTCCTAAGCAAGGAATGTTCGAAAAATTAGACGAAGGAATG
131 ACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATG
* * *
4737 GTTCATCTTGAATGCTTTAAG
196 GATCGTCTTGAATACTTTAAG
* * * * *
4758 GAACCGAAGTTATAAAAGAACT-TTAAAATGTTTGACATGTTCGGAAGTTTGTCCAACAACCAAC
1 GAACCGAAGTTATAAAAGAACTCAT-AAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAG
* * * * * *
4822 A-ATGAAACAATTTTCACGTAAAAAAGTTTTTAATTCAAAAACCAAAAGTTATTTTCAAAACGAC
65 AGA-GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAC
* * * * * * *
4886 AAAATTTTTAGACCAAATGAAGCGA-TTCTCGAGCTTGGAATGTTCAAAAAATTTGTCGAAGGAA
129 AAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAA
*
4950 TGGATCGTCTTGAATACTCTCAA-
194 TGGATCGTCTTGAATACT-TTAAG
* ** * * *
4973 GAATCGAAGTTATAAAAGAACTTGTAAATGTTTGACAAATTCGAAAGTTTGTCCAAGAACCAAGA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* *
5038 GAGAAATAATTCTCACGTAAATAA----TTAATTCAAAGACAAAAAGTTGTTTACAAAATGACAA
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * *
5099 ACTATTTAGACCAAATGATGCGACTTCTCGAGCATGGAATGTT-AAACAAATTGGTCGAAGGAAT
131 ACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAA-AAATTGGTCGAAGGAAT
*
5163 GGATCGTCTTGAATGCAC-TCAA-
195 GGATCGTCTTGAAT--ACTTTAAG
* ** * *
5185 GAACCAAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTTAGAAGTTTGCCCAAGAA-CAAGA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* * * * * *
5249 GAGAAATAATTCTCATGTAAATATGTTTTTAATTTAAAGACTAAAAGTTGTTTACAAAATAACAA
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * * *
5314 ACTATTTAGACCAAATGCTGCGATTTGCCGAGAATGGAGTGTTCGAAAAATTGGTCGAAGGAATG
131 ACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATG
* * *
5379 TG-TTGTCCTGAATGCTTTAAG
196 -GATCGTCTTGAATACTTTAAG
* * * * ** * * *
5400 GAACGGAAGTTATAAATGAACTCATAAAAGCTTGACAAGCGCGGAAGTTTGGCCAAGAACTAAGA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* *
5465 GAGAAACAATTCTCACGTAAATAAATTTTTTATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * * * * * *
5530 ACTACTTT--TCC----CA---GATTTCCCAAGAATGGAATGCTCGAAAAATTGGTTGAAAGAAT
131 ACTA-TTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAAT
*
5586 GGATCGTCTTGAATACTCTCAA-
195 GGATCGTCTTGAATACT-TTAAG
** ** * * *
5608 GAATTGAAGTTATAAAAGAACTCGA-AAACATTTGACAAGTTTGGAAGTTTGTCCAAGAGCCAAG
1 GAACCGAAGTTATAAAAGAACTC-ATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAG
* * * * * *
5672 AGAGAAACAATTCTTATGTAAATAAGTTTTAAATTCAGAGAACAAAAGTTCTTTACAAAATGACA
65 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * * *
5737 AACTATTTGGACCAAATGATGCGACTTT-TCGAGCATGGAATGTTTG-AAAATTGATCGAAGGAA
130 AACTATTTAGACCAAATGATGCGA-TTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAA
*
5800 TGGATCGTCTTGAATACTATCAA-
194 TGGATCGTCTTGAATACT-TTAAG
** * * *
5823 GAACTAAAGTTATAAAAAGAAC-GAGTAAAGGTTTGACAAGTTCAGAAGTTCGTCCAAGAACCAA
1 GAACCGAAGTTAT-AAAAGAACTCA-TAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAA
*
5887 GAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAC
64 GAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAC
* * * * *
5952 AAACTATTTAGACCAAATGATGCGGTTTCCTGAGAATGTAATGTTCAAAAAATTGGTTGAAGAAA
129 AAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAA----TT---G---
* *
6017 TAGATCGAAGGAATGGCTCATCTTGAATACTCTT-AG
184 --G-TCGAAGGAATGGATCGTCTTGAATACT-TTAAG
*** * * * ** ** * *
6053 GAATTAAAGTTATAAAAAAACT-AGCAAATGTTTCACAAGTTCAAAAAATCTTCCAAGAACTAAG
1 GAACCGAAGTTATAAAAGAACTCA-TAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAG
* * * * *
6117 AGAGAAATAGTTCTCATGTAAATAAGTTTTTAATTCAAAGACCGAAAGTTGTTAACAAAATGACA
65 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * * ** * *
6182 AACTATTTTGACCAAATAATGTGATTTCCCGAGCATGGAATGTTCGGTAAATTGCTCGAAAGAAT
130 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAAT
* * * *
6247 AGATTGACTTGAATACTTTATG
195 GGATCGTCTTGAATACTTTAAG
* * * *
6269 GAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTCGTCCAAGAACCAAGA
1 GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
* * * * *
6334 GAGAAACAATTCTCACTTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGGTTAGAAAATTAAAA
66 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
*
6399 ACTATTTAGACTC-AATGATGCGATTTCTCGAGCATGGAA
131 ACTATTTAGAC-CAAATGATGCGATTTCCCGAGCATGGAA
6438 ATGTGAGCTC
Statistics
Matches: 5113, Mismatches: 929, Indels: 334
0.80 0.15 0.05
Matches are distributed among these distances:
207 4 0.00
208 161 0.03
209 6 0.00
210 50 0.01
211 142 0.03
212 563 0.11
213 359 0.07
214 406 0.08
215 1026 0.20
216 1947 0.38
217 87 0.02
218 1 0.00
220 1 0.00
221 2 0.00
222 2 0.00
224 1 0.00
225 2 0.00
228 1 0.00
229 143 0.03
230 38 0.01
231 1 0.00
233 2 0.00
234 1 0.00
235 66 0.01
239 97 0.02
240 4 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (216 bp):
GAACCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
ACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATG
GATCGTCTTGAATACTTTAAG
Found at i:4104 original size:23 final size:23
Alignment explanation
Indices: 4077--4123 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
4067 ACCGTCTTTA
4077 ATACTTTATGGAACCGAAGTTAT
1 ATACTTTATGGAACCGAAGTTAT
4100 ATACTTTATGGAACCGAAGTTAT
1 ATACTTTATGGAACCGAAGTTAT
4123 A
1 A
4124 GAAGAACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (23 bp):
ATACTTTATGGAACCGAAGTTAT
Found at i:7354 original size:216 final size:215
Alignment explanation
Indices: 6617--7974 Score: 1620
Period size: 216 Copynumber: 6.3 Consensus size: 215
6607 TTGCTTGAAA
* * * * * * *
6617 GAATAGATCGCCTTGAATACTTTATGGAACTGATGTTACAAAAGAACTCGTAAAAGTTTGACAAG
1 GAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAG
* * * *
6682 TTCAAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTGTAATTCAAAG
66 TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* * *
6747 ACCAAAAGTTGTTTACAAAATTAAAAACTATTTAGACTC-AATGATGTGATTTCCCGAGCATGGA
131 ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGAC-CAAATGATGCGATTTCCCGAGCATGGA
*
6811 ATGTTCGAAAAATTGGTCAAAG
195 ATGTTCG-AAAATTAGTCAAAG
* * * ** * **
6833 GAATGGATTGTCTTGAATACTCTCAGGAATTGAAGTTATAAAAGAACACGTAAATGTTAAACAAG
1 GAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAG
* *
6898 TTCAGAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTGTTTACAAATTC
66 TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT-TTT---AATTC
* * * *
6963 AAAGACCAAAAGTTGTTTACAAATTCAAAAACTATTTAGACCAAATGATGCGATTTCCCAAGCAT
127 AAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCAT
* * *
7028 GG-ATTTTAAGAAAATTGGTC-AAG
192 GGAATGTT-CGAAAATTAGTCAAAG
* *
7051 AGAATGGATCGCCTTGAATACTCTT-AGGAATCGAAGTTATAAAAGAACTCGTAAATGTTTGACA
1 -GAATGGATCGTCTTGAATACT-TTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACA
*
7115 AGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTTTTAATTCAA
64 AGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAA
* * *
7180 AGACCAAAAGTTGTTTACAAAATGACACATTATTTAGACCAAATGATGCGATTTCCCGAGAATGG
129 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
* *
7245 AATGTTCGAAAAGTTACTCAAAT
194 AATGTTCGAAAA-TTAGTCAAAG
* * * *
7268 GAATGGATCATCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACTAG
1 GAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAG
* * * * * * * * *
7333 TGCATAAGTTCATCTAAGAACCAAGAGAGAAACAATTTTCATGTCAATAAGCTTTTCATTCAAAG
66 TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* * * *
7398 ACCAAAACTTGTTTACAAAATGACAAACAATTT-GAGCAAATGATGCTATTTCCCGAGCATGGAA
131 ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
* * *
7462 TGTTCAAAAAATTTGTCGAAGG
196 TGTTC-GAAAATTAGTC-AAAG
* * ** * *
7484 GAATGAATCGTCTTGAATACTCTCAA-GAACTAAAATTATAAAAGAACTCGTAAATGTTTGACAT
1 GAATGGATCGTCTTGAATACT-TTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAA
* * *
7548 GTTCAGAAGTTCGTCCAAGAACCGAGAGAGAAACAATTCTCATGTACATAAGTTTTTAATTCAAA
65 GTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAA
* * *
7613 GGCCAAAAGTTGTTTACACAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATGGA
130 GACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGA
* * *
7678 ATGTTTGAAAAATAGCTAAAAG
195 ATGTTCGAAAATTAG-TCAAAG
* * * * * *
7700 GAATGGATCGCCTTGAATACTCTAAGGAACCAAAGTTGTAAAAGAACTCGT-AATAGTTTAACTA
1 GAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAT-GTTTGACAA
* *
7764 GTT-TGTAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAACTTTTTAATTCAA
65 GTTCAG-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAA
* ** * * *
7828 ATACCAAAAGTTGTTTACAAAATGACAAACTATTTTTACCAAATGATGCGATTTCCTGAGAATGA
129 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
*
7893 AATGTTCAGAAAATCT-GTCGAAG
194 AATGTTC-GAAAAT-TAGTCAAAG
* * * * *
7916 GAGTGGGTTGTCTTGAATACTCTCAA-GAACCGAAGTTATAAAAGTACTCGTAAATGTTT
1 GAATGGATCGTCTTGAATACT-TTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTT
7975 ACCAAACGTT
Statistics
Matches: 977, Mismatches: 141, Indels: 48
0.84 0.12 0.04
Matches are distributed among these distances:
215 115 0.12
216 615 0.63
217 51 0.05
218 7 0.01
219 121 0.12
220 68 0.07
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (215 bp):
GAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAG
TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
TGTTCGAAAATTAGTCAAAG
Found at i:21165 original size:21 final size:23
Alignment explanation
Indices: 21135--21177 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
21125 ACGAGCCTAA
21135 TATTGTATTTATT-AAATTTTAT
1 TATTGTATTTATTCAAATTTTAT
21157 TATT-TATTTATTCCAAATTTT
1 TATTGTATTTATT-CAAATTTT
21178 GGATAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (23 bp):
TATTGTATTTATTCAAATTTTAT
Found at i:22295 original size:70 final size:71
Alignment explanation
Indices: 22192--22339 Score: 262
Period size: 70 Copynumber: 2.1 Consensus size: 71
22182 CTATTGGAAC
* *
22192 CTATACATAAAATGCTAAACTTACCGTAGTAATAATTTCCTTGGATTTTTTACGTATTCGCTATT
1 CTATACATAAAATGCTAAACTTACCGTAGTAATAATTTCCATGGATTTTTTACGTATTCGCTATC
22257 AAATAA
66 AAATAA
*
22263 CTATACATAAAATGC-AAACTTACCGTAGTAATAATTTCCATGGATTTTTTATGTATTCGCTATC
1 CTATACATAAAATGCTAAACTTACCGTAGTAATAATTTCCATGGATTTTTTACGTATTCGCTATC
22327 AAATAA
66 AAATAA
22333 CTATACA
1 CTATACA
22340 CTTACAATCA
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
70 59 0.80
71 15 0.20
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (71 bp):
CTATACATAAAATGCTAAACTTACCGTAGTAATAATTTCCATGGATTTTTTACGTATTCGCTATC
AAATAA
Found at i:25453 original size:22 final size:22
Alignment explanation
Indices: 25399--25467 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
25389 TTTTTTAATT
* *
25399 AAATATTTTATTCTTTAAATTTTA
1 AAATATTTT-TT-TCTAATTTTTA
* *
25423 AAAGAATTTTTTTGTAATTTTTA
1 AAA-TATTTTTTTCTAATTTTTA
*
25446 AAATATTTATCTTCTAATTTTT
1 AAATATTT-TTTTCTAATTTTT
25468 TTCAGATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
22 4 0.11
23 23 0.62
24 5 0.14
25 5 0.14
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (22 bp):
AAATATTTTTTTCTAATTTTTA
Found at i:35385 original size:19 final size:20
Alignment explanation
Indices: 35363--35403 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 20
35353 ATGTTAGTTT
35363 GTTTTGATTTT-GGGTTT-AG
1 GTTTT-ATTTTGGGGTTTAAG
35382 G-TTTATTTTGGGGTTTAAG
1 GTTTTATTTTGGGGTTTAAG
35401 GTT
1 GTT
35404 CAGAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.26
18 9 0.47
19 4 0.21
20 1 0.05
ACGTcount: A:0.12, C:0.00, G:0.32, T:0.56
Consensus pattern (20 bp):
GTTTTATTTTGGGGTTTAAG
Found at i:35389 original size:17 final size:19
Alignment explanation
Indices: 35369--35403 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
35359 GTTTGTTTTG
35369 ATTTT-GGGTTT-AGGTTT
1 ATTTTGGGGTTTAAGGTTT
35386 ATTTTGGGGTTTAAGGTT
1 ATTTTGGGGTTTAAGGTT
35404 CAGAATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.14, C:0.00, G:0.31, T:0.54
Consensus pattern (19 bp):
ATTTTGGGGTTTAAGGTTT
Found at i:36048 original size:24 final size:25
Alignment explanation
Indices: 36002--36057 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
35992 TTTCATTAGC
* *
36002 ATGTGGTTTTTCATATTGGTCAA-A
1 ATGTGATTTTTCATATTGATCAACA
*
36026 ATGTGATTTTTCATATTTATCAACA
1 ATGTGATTTTTCATATTGATCAACA
36051 A-GTGATT
1 ATGTGATT
36058 CTTTAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (25 bp):
ATGTGATTTTTCATATTGATCAACA
Found at i:37325 original size:45 final size:45
Alignment explanation
Indices: 37222--37325 Score: 102
Period size: 46 Copynumber: 2.3 Consensus size: 45
37212 ATTAAGTTAT
* * * * * **
37222 TGTCTTGGCAAAAGAAAAATGTTAGGGTACAGTTAGTGTAGGTTAA
1 TGTCATGGC-AAAGAAAAATGTCAGGGTAAAGTTAATATAAATTAA
*
37268 TGTCATGACAAAGAAATAATGTCAGGGTAAAGTTAATATAAATT-A
1 TGTCATGGCAAAGAAA-AATGTCAGGGTAAAGTTAATATAAATTAA
*
37313 TGTTATGGCAAAG
1 TGTCATGGCAAAG
37326 TGATATAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
45 19 0.40
46 28 0.60
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (45 bp):
TGTCATGGCAAAGAAAAATGTCAGGGTAAAGTTAATATAAATTAA
Found at i:38919 original size:3 final size:3
Alignment explanation
Indices: 38911--38935 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
38901 TAAGTTTTAT
38911 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
38936 ACTTAATCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:39412 original size:16 final size:16
Alignment explanation
Indices: 39391--39424 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
39381 ACGCAATTAT
39391 AACAATGTCATGACAA
1 AACAATGTCATGACAA
*
39407 AACAATGTTATGACAA
1 AACAATGTCATGACAA
39423 AA
1 AA
39425 TATAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (16 bp):
AACAATGTCATGACAA
Found at i:52027 original size:31 final size:32
Alignment explanation
Indices: 51984--52049 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
51974 GTGGAAGCAT
* *
51984 TTTTGGGCAAAAAA-AGCCTATATGGATGTGC
1 TTTTAGGCAAAAAAGAGCCTATATGGACGTGC
52015 TTTTAGGCAAAAAAGAGCCTATATGGACGTGC
1 TTTTAGGCAAAAAAGAGCCTATATGGACGTGC
52047 TTT
1 TTT
52050 AGCCTGTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (32 bp):
TTTTAGGCAAAAAAGAGCCTATATGGACGTGC
Found at i:52372 original size:19 final size:17
Alignment explanation
Indices: 52340--52426 Score: 77
Period size: 19 Copynumber: 4.7 Consensus size: 17
52330 TAAGAGTTAA
52340 TTTTAATTTTTTATAAT
1 TTTTAATTTTTTATAAT
52357 TTTTATATTATTTTATAAT
1 TTTTA-ATT-TTTTATAAT
52376 TTAATT-ATTTTTTATAAT
1 TT--TTAATTTTTTATAAT
*
52394 ATTTAATTATTTTTATAACT
1 TTTTAA-T-TTTTTATAA-T
*
52414 TAATTAATTTTTT
1 T-TTTAATTTTTT
52427 TAAATATTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
16 2 0.03
17 6 0.10
18 14 0.24
19 28 0.48
20 2 0.03
21 6 0.10
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTAATTTTTTATAAT
Found at i:52388 original size:37 final size:38
Alignment explanation
Indices: 52342--52435 Score: 131
Period size: 37 Copynumber: 2.5 Consensus size: 38
52332 AGAGTTAATT
* *
52342 TTAATTTTTTATAATTTTTATATTA-TTTTATAATTTAA
1 TTAATTTTTTATAATATTTA-ATTATTTTTATAACTTAA
52380 TT-ATTTTTTATAATATTTAATTATTTTTATAACTTAA
1 TTAATTTTTTATAATATTTAATTATTTTTATAACTTAA
52417 TTAATTTTTT-TAAATATTT
1 TTAATTTTTTAT-AATATTT
52436 TTTATGTAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
36 4 0.08
37 31 0.61
38 16 0.31
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (38 bp):
TTAATTTTTTATAATATTTAATTATTTTTATAACTTAA
Found at i:54177 original size:18 final size:18
Alignment explanation
Indices: 54133--54177 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
54123 TCGGGGAGCT
* *
54133 CAACTCAATTCCAATCGC
1 CAACTCAATACCAATCAC
54151 C-ACTCCAATACCAATCAC
1 CAACT-CAATACCAATCAC
54169 CAACTCAAT
1 CAACTCAAT
54178 TCCTACCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.38, C:0.40, G:0.02, T:0.20
Consensus pattern (18 bp):
CAACTCAATACCAATCAC
Found at i:55127 original size:124 final size:123
Alignment explanation
Indices: 55035--55292 Score: 372
Period size: 124 Copynumber: 2.1 Consensus size: 123
55025 AAAATAAAAC
*
55035 AAAAAAAATTAATTCTTTCAATATGTTATGGGTTTTTTTACCTAAAATATATAAAATAAATACTA
1 AAAAAAAATTAATTCTTTCAATATGTTAT-GGTTTTTTCACCTAAAATATATAAAATAAATACTA
* * **
55100 AAATTGCAATTTAATAACAAATAATAAACATTTATAAAAATAATTAAATAATTTGAATAA
65 AAATTGCAATTTAACAACAAATAATAAAAATTTATAAAAAT-ATTAAATAAAATGAATAA
* *
55160 AAAAAAATTTAATTCTTTCAATTTGTTATGGTTTTTTCACCTAAAATATATAAAATAAATACTAA
1 AAAAAAAATTAATTCTTTCAATATGTTATGGTTTTTTCACCTAAAATATATAAAATAAATACTAA
* * * **
55225 AATTGCAATTTAACCATAAATAATAAATATTTATAAAAATAATTAAATAATTTGAATAA
66 AATTGCAATTTAACAACAAATAATAAAAATTTATAAAAAT-ATTAAATAAAATGAATAA
*
55284 AAATAAAAT
1 AAAAAAAAT
55293 AGAAAAAAAT
Statistics
Matches: 124, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
124 97 0.78
125 27 0.22
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (123 bp):
AAAAAAAATTAATTCTTTCAATATGTTATGGTTTTTTCACCTAAAATATATAAAATAAATACTAA
AATTGCAATTTAACAACAAATAATAAAAATTTATAAAAATATTAAATAAAATGAATAA
Found at i:55266 original size:19 final size:22
Alignment explanation
Indices: 55242--55289 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
55232 ATTTAACCAT
55242 AAATAA-TAAAT-ATTT-ATAA
1 AAATAATTAAATAATTTAATAA
55261 AAATAATTAAATAATTTGAATAA
1 AAATAATTAAATAATTT-AATAA
55284 AAATAA
1 AAATAA
55290 AATAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.24
20 5 0.20
21 4 0.16
23 10 0.40
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATAATTAAATAATTTAATAA
Found at i:55423 original size:18 final size:20
Alignment explanation
Indices: 55375--55429 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
55365 ACTAAAACCA
*
55375 AATTTAAAAACCTTAAACTCT
1 AATTT-AAAACCCTAAACTCT
55396 AATTTTAAAACCCTAAACT-T
1 AA-TTTAAAACCCTAAACTCT
55416 AA-TTAAAACCCTAA
1 AATTTAAAACCCTAA
55430 GGCCCAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 12 0.38
20 3 0.09
21 14 0.44
22 3 0.09
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (20 bp):
AATTTAAAACCCTAAACTCT
Found at i:56692 original size:19 final size:17
Alignment explanation
Indices: 56650--56693 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
56640 AATTTTTATC
56650 ATTATAA-AAAATATTA
1 ATTATAATAAAATATTA
*
56666 ATTCTAATAAAATATTAA
1 ATTATAATAAAATATT-A
56684 ATCTATAATA
1 AT-TATAATA
56694 TATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 3 0.13
19 6 0.26
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTATAATAAAATATTA
Done.