Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010287.1 Kokia drynarioides strain JFW-HI SEQ_125136, 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: 6624
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.26
Warning! 260 characters in sequence are not A, C, G, or T
Found at i:576 original size:216 final size:216
Alignment explanation
Indices: 13--5832 Score: 2619
Period size: 216 Copynumber: 26.9 Consensus size: 216
3 TGCTCTCAGA
* *
13 AACCGAAGTTATAAAAGAACTGGTAAATA-TTTGACAAGTTCTG-AAGTTCGTCCAAGAACCATG
1 AACCGAAGTTATAAAAGAACTCGTAAA-AGTTTGACAAGTTC-GAAAGTTCGTCCAAGAACCAAG
* * *
76 AGAGAAACAGTCCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGGTT-TTTACAAAATGAC
64 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA-GTTGTTTACAAAATGAC
* * * * * ** ** *
140 AAACTATTTATACCCAATGATGCAATTTCCCGAGCATGGAATGTTTTAAAAATTGCACAAAGGAA
128 AAACTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAA
* *
205 TGGATCGTCTTTAATACTCTCAA-G
193 TGGATCGTCTTGAATACT-TTAAGG
* * * * * **
229 AACCAAAGTTATAATAAAAGAACTTGT-AAATTATTGAAAAGTTTGAAAGTTAATCCAAGAACCA
1 AACCGAAG-T-T-ATAAAAGAACTCGTAAAAGT-TTGACAAGTTCGAAAGTTCGTCCAAGAACCA
* * * * * * * *
293 AGAGAGAAA-ATATTCACATGCAAATAAATTTTAAATTCAAACACCAAAAGTTGTTTACCATATG
62 AGAGAGAAACA-ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG
* * * * *
357 ACAAACTATTTTGACCAAATGATGCAATTTTCTGAGAACGGAATGTTCGAAAAATTGGTTGAAGG
126 ACAAACTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGG
* * * * *
422 AATGCATCTTTTTAAATAC-TAATAGG
191 AATGGATCGTCTTGAATACTTTA-AGG
* * ** * ***
448 AACCAAAGTTATAAAAGAACTTGTAAATTTTTGAAAAGTTC-AGAAGTTCGTCCAAGAACTGGGA
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGA-AAGTTCGTCCAAGAACCAAGA
* *
512 GAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAATGACCAAAAGTTGTTTACAAAATGACAA
65 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * * *
577 ACTATTTAGACCAAATGAGGTGA-TTTCTGGAGCATGGAATGTTCGAAAAA-TGGCTCAAATGAA
130 ACTATTTAGACCAAATGATGCGATTTTCT-GAGCATGGAATGTTCGAAAAATTGG-TCGAAGGAA
* * *
640 TGGATAGTATTGAATACATTAAGG
193 TGGATCGTCTTGAATACTTTAAGG
* * * * * ** *
664 AACCAAAGTTGTAAAAGAACTCGTAAAAGTTTGACTAGTTCGTAAGTTTGTCTGAGAACGAAGAG
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAG
* * * * * *
729 AGAAACAATTCTCATGTAAATAAGTTTTTAATTTAAAGATCAAAATTTGTTTACAAAATCACAAG
66 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
* * * * * * *
794 CTATTTAGACCAAA--AAGCGATCTCCGGAGCATGAAATGTT-TAGAAAA-TGGCTCAAAGGAAT
131 CTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGA-AAAATTGG-TCGAAGGAAT
* *
855 GGATAGTCTTGAATACTTTGAGG
194 GGATCGTCTTGAATACTTTAAGG
* * * * * *
878 AACCAAAGTTATAAAATAACTCGTAAAAGTTTGACTAGTTCGTAAGTTCATCCGAGAACCACA-A
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCA-AGA
* * * *
942 GAGAAATAATTCTCACGTAAAT-AGATTTTTGAATTCGAAGACTAAAAGTTGTTTACATAATGAC
65 GAGAAACAATTCTCACGTAAATAAG-TTTTT-AATTCAAAGACCAAAAGTTGTTTACAAAATGAC
* * * ** *
1006 -AACGTTTTTAGACCGAATGATACGATTCGC-GAGCATGGAAAGTTCGAAAAATTGGTCGAAGGA
128 AAAC-TATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGGA
* *
1069 ATGGATCGTCTTGAATACTCTCAGG
192 ATGGATCGTCTTGAATACTTTAAGG
** * * * * * ** * * *
1094 AACTTAAGTCACAAAAGAGCTAC-TAAATGTTCCG-CAAGAACGGAAGTTCGTCCAAAAACCATG
1 AACCGAAGTTATAAAAGAACT-CGTAAAAGTT-TGACAAGTTCGAAAGTTCGTCCAAGAACCAAG
* * *
1157 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAATTGTTTAGAAAATGATA
64 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* ** *
1222 ACCTATTTAGACCAAATGATGTC-A-TTTCTCGAGCATGGAATGCTT-GAAAAATTGCACAAAGG
129 AACTATTTAGACCAAATGATG-CGATTTTCT-GAGCATGGAATG-TTCGAAAAATTGGTCGAAGG
** * * * *
1284 AATGGATCACCTTTAATAGTGTATGG
191 AATGGATCGTCTTGAATACTTTAAGG
*
1310 AACCGAAGTTAT-AAAGCAACT-GATAAAAAGTTTGACAAGTT-TAGAAGTTCGTCCAAGAACCA
1 AACCGAAGTTATAAAAG-AACTCG-T-AAAAGTTTGACAAGTTCGA-AAGTTCGTCCAAGAACCA
* * * * *
1372 AGAGAGAAACAATTATCATGTAAAT-A-TTTTTAAATCAAAGACGAAAAGTTGATTACAAAATGA
62 AGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGA
* * * * * * *
1435 AAAATTATTTAGACCAAACGATGCGA-TTTCTCAAGCATAGAATGTT-TAGAAAATTGCTCGAAG
127 CAAACTATTTAGACCAAATGATGCGATTTTCT-GAGCATGGAATGTTCGA-AAAATTGGTCGAAG
1498 GAATGGATCGTCTTGAATACTTTAAGG
190 GAATGGATCGTCTTGAATACTTTAAGG
* * * * * * *
1525 AGCTGAAGTTATAAAAGAAGTCATAAAAGCTTGACAAGTTCGAAAGTTCAG-CTAAGAACAAAGA
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-GTCCAAGAACCAAGA
* * * *
1589 GAGAAATAGTTCTCACGTAAATAAGTTTTTAATTCAAAGAGCAAAAGTTGTTTACGAAATGACAA
65 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * * * *
1654 ACTATTTAGACCAAATAATGCGATTTTTTTAGCATTGAATGTTCGAAAAAATGGTCGAAGG-ATA
130 ACTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAAT-
*
1718 GGATCAG-CTTGAATAATTTAAGG
194 GGATC-GTCTTGAATACTTTAAGG
* * * *
1741 AACCGAAGTTATAAATGAACTCGTAAAAATTTGACAAGTTCGAAAGTTCATCCAAAAACCAAGAG
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAG
** * *
1806 AGAAACAATTCTCACGTAAATAAGTTTCCAATTCAAAGACCAAAAGTTGTTTACAAAATTAAAAA
66 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAA-T-GACA
*** * * * * * *
1871 AAC-ATTTAGAATGAATGATGCGATTTCCCGAGCCTGGAATGCTAGAAAAATTAGTCGAAGGAAT
129 AACTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAAT
* * * * * * *
1935 GGGTCATCTTTAATGCTCTCAGA
194 GGATCGTCTTGAATACTTTAAGG
* *
1958 AACCGAAGTTATAAAAGAAC-GGGAAATA-TTTGACAAGTTCTG-AAGTTCGTCCAAGAACCAAG
1 AACCGAAGTTATAAAAGAACTCGTAAA-AGTTTGACAAGTTC-GAAAGTTCGTCCAAGAACCAAG
* *
2020 AGAGAAACAATCCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT-TTTACAAAATGACA
64 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * * ** *
2084 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTTGAAAAATTGCACAAAGGAAT
129 AACTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAAT
*********************
2149 GGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
194 GG--------------ATCGTCTTGAATACTTTAAGG
*****************************************************************
2186 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAG
********* * * * * * * *
2251 NNNNNNNNNTCTCATGCAAATAAATTTTAAATTCAAACACCAAAAGTTGTTTACCATATGACAAA
66 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
* * * * *
2316 CTATTTTGACCAAATGATGCAATTTTTCCGAGAATGGAATGTTCGAAAAATTGGTTGAAGGAATG
131 CTATTTAGACCAAATGATGCGA-TTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATG
* * * * *
2381 CATCTTTTTAAATAC-TAATAGG
195 GATCGTCTTGAATACTTTA-AGG
* * ** * * * *
2403 AACCAAAGTTATAAAAGAACTTGTAAATTTTTGAAAAGTTCGGAAGTTCATCCAAGAA-CAGGGA
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCA-AGA
*
2467 GAAAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
65 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * * * *
2532 ACTATTTAGACCAAATGATGCGATTCTC-GAGCATGGAATGTTTGGAAAA-TGGCTCAAATGAAT
130 ACTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGG-TCGAAGGAAT
* *
2595 GGATAGTCTTGAATACTTTAGGG
194 GGATCGTCTTGAATACTTTAAGG
* * * * * *
2618 AACCAAAGTTGTAAAAGAACTCGTAAAAGTTTGACTAG-TCTGTAAGTTCGTTCGAGAACCAAGA
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC-GAAAGTTCGTCCAAGAACCAAGA
* * * * * *
2682 GGGAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAAACCAAAATTTGTTTACAAAATCAAAA
65 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * *
2747 ACTATTTAGACCAAAAGATGCGA-TTTCTGGAGCATGGAATGTTC-AGAAATTGGCTCAAAGGAA
130 ACTATTTAGACCAAATGATGCGATTTTCT-GAGCATGGAATGTTCGAAAAATTGG-TCGAAGGAA
* * *
2810 TGGATAGTCTTCAATACTTTGAGG
193 TGGATCGTCTTGAATACTTTAAGG
* * * * * * * *
2834 AACCAAAGTTATGAACGAACTTGTAAAAAGTTCGACCAA-TTCGTATGTTCGTCCTAGAACCACA
1 AACCGAAGTTATAAAAGAACTCGT-AAAAGTTTGA-CAAGTTCGAAAGTTCGTCCAAGAACCA-A
* * *
2898 -AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCGAAGACTAAAAGTTGTTTACATAATGAC
63 GAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAC
* * * * * * * *
2962 AAAGTTTTTAGACCGAATGATACGA-TTCCCGAGCATGGAAAGTTCGAACAATTGGTCGAAGGAA
128 AAACTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAA
* *
3026 TGGATCGTCTTGAATACTCTCAGG
193 TGGATCGTCTTGAATACTTTAAGG
** * * * * * ** * * *
3050 AACTTAAGTCACAAAAGAGCTAC-TAAATGTTCCG-CAAGAACGGAAGTTCGTCCAAAAACCATG
1 AACCGAAGTTATAAAAGAACT-CGTAAAAGTT-TGACAAGTTCGAAAGTTCGTCCAAGAACCAAG
* * *
3113 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAATTGTTTAGAAAATGATA
64 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * ** *
3178 ACCTATTTAGACCAAATGATGTC-A-TTTCTCGAGCATGGAATGCTT-GAAATATTGCACAAAGG
129 AACTATTTAGACCAAATGATG-CGATTTTCT-GAGCATGGAATG-TTCGAAAAATTGGTCGAAGG
** *
3240 AATGGATCACCTTGAATAGTTTAAGG
191 AATGGATCGTCTTGAATACTTTAAGG
* * * *
3266 AACCGAAGTTATAAAGGAACT-GATAAAAAG-TTAACCAGTT-TAGAAGTTCGTCCAAGAACCAA
1 AACCGAAGTTATAAAAGAACTCG-T-AAAAGTTTGACAAGTTCGA-AAGTTCGTCCAAGAACCAA
* * * * *
3328 GAGAGAAACAATTGTCATGTAAAT-A-TTTTTAATTCAAAGACGAAAAGTTGATTACAAAATGAA
63 GAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAC
* * ** ** * * *
3391 AAACTATTTAGACCAAACGATGCGATTTCCCAAGTGTAGAATGTTCGAAAAATTGCTTGAAGGAA
128 AAACTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAA
* *
3456 TGGATCATCTTGAATACTTGAAGG
193 TGGATCGTCTTGAATACTTTAAGG
* * * ** *
3480 AACTGAAGTTATAAAAGAACTCATAAAAGCTTGACAAGTTCGATTGTTCAG-CCAAGAACAAAGA
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-GTCCAAGAACCAAGA
* * *
3544 GAGAAACAGTTCTCACGTAAATAAGTTTTTAATTCAAAGAGCAAAAGTTGTTTACGAAATGAC--
65 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
************************************************** * *
3607 A--NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTC-ATGTAAAT
130 ACTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAG-GAAT
* * *
3669 --AT--T-TT---TAATTCAAAG
194 GGATCGTCTTGAATACTTTAAGG
* * * * *
3684 -A-CGAAAAGTTGATTACAA-AA-T-GAAAAACTATTTAGACCAAACGATGCG--ATTTC--CCA
1 AACCG--AAGTT-A-TAAAAGAACTCGTAAAA--GTTT-GA-C-AA-G-TTCGAAAGTTCGTCCA
* * *** * * * * * * * * * **
3740 AGTGTA-GAATGTTCGAAA-AATTGCTTGAAGGAATGGATCA-TCTTGAATACTTGAAGGAACTG
55 A--GAACCAA-GAGAGAAACAATT-C-TCACGTAA---ATAAGT-TT--TTAATTCAAAGACCAA
* * * * * * * *
3802 AAG-T-TATAAAAGAACTCATAAA--AGCTT-GA-C-AA-G-TTCGATTGTTC--AGCCAAGAAC
109 AAGTTGTTTACAA-AA-TGACAAACTA-TTTAGACCAAATGATGCGATT-TTCTGAG-CATG--G
* *** * * * * * * * **
3856 AAAGAGAGAAACAGTT-CTC-ACGTAA---ATAAGTTTTTAAT--TCAAAGAG
167 AATGTTCGAAA-AATTGGTCGAAGGAATGGAT-CGTCTTGAATACTTTAAG-G
** ** * * * ***
3902 CAAAAGTTGTT-TACGAAATG-A--C-AAACTA-TTTAGACCAAATAATGCG--A-TTC-TTTTA
1 -AACCGAAGTTATA--AAA-GAACTCGTAA-AAGTTT-GA-CAAGT--T-CGAAAGTTCGTCCAA
*** *** * ** * * * * ** * *
3957 GCATTGAATGTTTGAAAAAATGGTCGAAGGATAGGATCGACTTGAATAATT--TAGACCAAAATT
56 G-AACCAA-GAGAGAAACAAT--TCTCACG-TA-AAT-AAGTT-TTTAATTCAAAGACCAAAAGT
* * *
4020 TGTTTAGAAAATGATAACCTATTTAGACCAAATGATGTC-A-TTTCTCGAGCATGGAATGCTT-G
113 TGTTTACAAAATGACAAACTATTTAGACCAAATGATG-CGATTTTCT-GAGCATGGAATG-TTCG
**** ** * *
4082 AAAAATTGCAAAAAGGAATGGATCACCTTTAATAGTTTAAGG
175 AAAAATTGGTCGAAGGAATGGATCGTCTTGAATACTTTAAGG
* * *
4124 AATCGAAGTTATAAAGGAACT-GATAAAAAGTTTGACAAGTT-TAGAAGTTCGTCCAAGAACCAA
1 AACCGAAGTTATAAAAGAACTCG-T-AAAAGTTTGACAAGTTCGA-AAGTTCGTCCAAGAACCAA
* * * * * *
4187 GAGAGAAACAATTGTCATGTAAA-AA-TTATTAATTCAAAGACGAAAAGTTGATTACAAAATGAA
63 GAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAC
* * * * * *
4250 AAATTATTTAGACCAAACGATGCGA-TTTCTCAAG-AGTAGAATGTT-TAGAAAATTGCTCGAAG
128 AAACTATTTAGACCAAATGATGCGATTTTCT-GAGCA-TGGAATGTTCGA-AAAATTGGTCGAAG
4312 GAATGGATCGTCTTGAATACTTTAAGG
190 GAATGGATCGTCTTGAATACTTTAAGG
* * * * * * *
4339 AACTGAAATTATTAAAGAACTCATAAAAGCTTGACAAGTTCGAAAGTTCAG-CTAAGAACAAAGA
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-GTCCAAGAACCAAGA
** ** *
4403 GAGAAACTGTTCTCACGTAAATAAGTTTTTAATTCAAAGGGCAAAAGTTGTTTACGAAATGACAA
65 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * * * *
4468 ACTATTTAGACCAAATAATGCGATTTT-TCGAGCTTTGAATGTCCGAAAAACTGGTCGAAGG-AT
130 ACTATTTAGACCAAATGATGCGATTTTCT-GAGCATGGAATGTTCGAAAAATTGGTCGAAGGAAT
* *
4531 AGGATCGGCTTGAATAATTTAAGG
194 -GGATCGTCTTGAATACTTTAAGG
* *
4555 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAAAACCAAGAG
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAG
*************************************************** *
4620 AGAAACAATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAAAA
66 AGAAACAAT-TCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
*** * * * *
4685 AC-ATTTAGAATGAATGATGCGATTTCCCGAGCATGGAATGCTCGAAAAATTAGTCGAAGGAATG
130 ACTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATG
* * * * *
4749 GGTCATCTTTAATGCTCTT-AGA
195 GATCGTCTTGAATACT-TTAAGG
* * *
4771 AATCGAAGTTATAAAAGAACTGGCAAATA-TTTGACAAGTTCTG-AAGTTCGTCCAAGAACCAAG
1 AACCGAAGTTATAAAAGAACTCGTAAA-AGTTTGACAAGTTC-GAAAGTTCGTCCAAGAACCAAG
** * *
4834 AGAGAAACTGTCCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGGTT-TTTACAAAATGAC
64 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA-GTTGTTTACAAAATGAC
* * * ** * * *
4898 AAACTATTTAGACC--A-GATGCGATTTCCCGAGCATGGAATGTTTGAAAAATTGCACAAAGTAT
128 AAACTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAA
* * *
4960 TGGATCGTCTTTAATGCTCTCAA-G
193 TGGATCGTCTTGAATACT-TTAAGG
* ** * * **
4984 AACCAAAGTTATAATAAAAGAACAT-GTAAATTTTTGAAAAGTTTGAAAGTTAATCCAAGAACCA
1 AACCGAAG-T-T-ATAAAAGAAC-TCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCA
* * * * * * *
5048 AGAGAGAAA-ATATTCTCATGCAAATAAATTTTAAATTCAAACACCAAAAGTTGTTTACCATATG
62 AGAGAGAAACA-ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG
* * * * * *
5112 ACAAACTATTTTGACCAAATGATGCAATTTTCCGAGAAAGGAATGTTCGAAAAATTGGTTGAAGG
126 ACAAACTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGG
* * * * *
5177 AATGCATCTTTTTAAATAC-TAATAGG
191 AATGGATCGTCTTGAATACTTTA-AGG
* * ** * **
5203 AACCAAAGTTATAAAAGAACTTGTAAATTTTTGAAAAGTTC-AGAAGTTCGTCCAAGAACCGGGA
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGA-AAGTTCGTCCAAGAACCAAGA
*
5267 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAATACCAAAAGTTGTTTACAAAATGACAA
65 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * * * ** *
5332 GCAATTTAGACCAAATGATGCGA-TTTCTCGAGCATGGAATGTTCG-GAAAGTGGCTAAAATGAA
130 ACTATTTAGACCAAATGATGCGATTTTCT-GAGCATGGAATGTTCGAAAAATTGG-TCGAAGGAA
*
5395 TGGATAGTCTTGAATACTTTAAGG
193 TGGATCGTCTTGAATACTTTAAGG
** * * * * * *
5419 AACTAAATTTGTAAAAGAACTCGTAAAAGTTTGACTAGTTCGTATGTTCGTCCGAGAACCAAGAG
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAG
* * *
5484 AGAGACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAATTTGTTTACAAAATCACAAA
66 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
* * *
5549 CTATTTAGACCGAAA-GATGCGATTTTCGGAGCATGGAATGTT-TAGAAAA-TGGCTCAAAGGAA
131 CTATTTAGACC-AAATGATGCGATTTTCTGAGCATGGAATGTTCGA-AAAATTGG-TCGAAGGAA
* *
5611 TGGATAGTCTTGAATACTTTGAGG
193 TGGATCGTCTTGAATACTTTAAGG
* * * * **
5635 AACCAAAGTTATAAAAGAACTCGTAAAAGTTCGACTAGTTCGTAAGTTCGTCCTTGAACCACA-A
1 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCA-AGA
* * * * *
5699 GAGAAACAATTCTCACGTAAATAGGTTTTTAATTTAAAGACTAAAAGTTATTTACATAATGACAA
65 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAA
* * * * * * *
5764 AGTTTTTAGACCGAATGATACGA-TTCCCGAGCATGGAAAGTTCGAAAAATTGGTCGAAGGAATG
130 ACTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATG
5828 GATCG
195 GATCG
5833 NNNNNNNNNN
Statistics
Matches: 4133, Mismatches: 1205, Indels: 533
0.70 0.21 0.09
Matches are distributed among these distances:
202 1 0.00
203 5 0.00
204 13 0.00
205 5 0.00
206 10 0.00
207 8 0.00
208 14 0.00
209 6 0.00
210 5 0.00
211 3 0.00
212 15 0.00
213 91 0.02
214 508 0.12
215 684 0.17
216 1914 0.46
217 397 0.10
218 50 0.01
219 236 0.06
220 10 0.00
221 25 0.01
222 15 0.00
223 10 0.00
224 5 0.00
229 34 0.01
230 34 0.01
231 35 0.01
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.27
Consensus pattern (216 bp):
AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAG
AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
CTATTTAGACCAAATGATGCGATTTTCTGAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATGG
ATCGTCTTGAATACTTTAAGG
Found at i:1731 original size:647 final size:643
Alignment explanation
Indices: 13--3607 Score: 2890
Period size: 647 Copynumber: 5.5 Consensus size: 643
3 TGCTCTCAGA
* *
13 AACCGAAGTTATAAAAGAACTGGTAAATA-TTTGACAAGTTCTGAAGTTCGTCCAAGAACCATGA
1 AACCGAAGTTATAAAAGAACT-GTAAAAAGTTTGACAAGTT-TGAAGTTCGTCCAAGAACCAAGA
* * *
77 GAGAAACAGTCCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGGTT-TTTACAAAATGACA
64 GAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAA-GTTGTTTACAAAATGAAA
* * * * *
141 AACTATTTATACCCAATGATGCAATTTCCCGAGCATGGAATGTTTTA-AAAATTGCACAAAGGAA
128 AACTATTTAGACCAAACGATGCGATTTCCCGAGCATGGAATG-TTTAGAAAATTGCTCAAAGGAA
* * * *** *
205 TGGATCGTCTTTAATACTCTCAA-GAACCAAAGTTATAATAAAAGAACTTGTAAATTATTGAAAA
192 TGGATCGTCTTGAATACT-TTAAGGAACCAAAG-T-T-ATAAAAGAACTCGTAAAAGCTTGACAA
* * * * * * * * *
269 GTTTGAAAGTTAATCCAAGAACCAAGAGAGAAA-ATATTCACATGCAAATAAATTTTAAATTCAA
253 GTTCGAAAGTTCAGCCAAGAACAAAGAGAGAAATA-ATTCTCACGTAAATAAGTTTTTAATTCAA
* * * * * * *
333 ACACCAAAAGTTGTTTACCATATGACAAACTATTTTGACCAAATGATGCAATTTTCTGAGAACGG
317 AGA-CAAAAGTTGTTTA-CAAATGACAAACTATTTAGACCAAATGATGCGATTTTCCGAGCATGG
* * ** *
398 AATGTTCGAAAAATTGGTTGAAGGAATGCATCTTTTTAAATACTAATAGGAACCAAAGTTATAAA
380 AATGTTCGAAAAATTGGTCGAAGGAATGGATC-GCTTGAATACT-ATAGGAACCAAAGTTATAAA
** * * * * **
463 AGAACTTGTAAATTTTTGAAAAGTTCAGAAGTTCGTCCAAGAACTGGGAGAGAAACAATTCTCAC
443 AGAACTACTAAATTTCTGACAAGTTCGGAAGTTCGTCCAAAAACCAGGAGAGAAACAATTCTCAC
* *
528 GTAAATAAGTTTTTAATCCAATGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAAT
508 GTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAAT
* * * * * *
593 GAGGTGATTTCTGGAGCATGGAATG-TTCGAAAAATGGCTCAAATGAATGGAT-A-GTATTGAAT
573 GATGTCATTTCTCGAGCATGGAATGCTT-GAAAAATTGCTCAAAGGAATGGATCACCT-TT-AAT
**
655 ACATTAAGG
635 AGTTTAAGG
* * * * * ** *
664 AACCAAAGTTGTAAAAGAACTCGT-AAAAGTTTGACTAGTTCGTAAGTTTGTCTGAGAACGAAGA
1 AACCGAAGTTATAAAAGAACT-GTAAAAAGTTTGACAAGTTTG-AAGTTCGTCCAAGAACCAAGA
* * * * *
728 GAGAAACAATTCTCATGTAAATAAGTTTTTAATTTAAAGATCAAAATTTGTTTACAAAATCACAA
64 GAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAA
* * * * * *
793 GCTATTTAGACCAAA--AAGCGATCTCCGGAGCATGAAATGTTTAGAAAATGGCTCAAAGGAATG
129 ACTATTTAGACCAAACGATGCGATTTCCCGAGCATGGAATGTTTAGAAAATTGCTCAAAGGAATG
* * * * * *
856 GATAGTCTTGAATACTTTGAGGAACCAAAGTTATAAAATAACTCGTAAAAGTTTGACTAGTTCGT
194 GATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGCTTGACAAGTTCGA
* * * *
921 AAGTTCATCCGAGAACCACA-AGAGAAATAATTCTCACGTAAAT-AGATTTTTGAATTCGAAGAC
259 AAGTTCAGCCAAGAA-CAAAGAGAGAAATAATTCTCACGTAAATAAG-TTTTT-AATTCAAAGAC
* * *
984 TAAAAGTTGTTTACATAATGAC-AACGTTTTTAGACCGAATGATACGA--TTCGCGAGCATGGAA
321 -AAAAGTTGTTTACA-AATGACAAAC-TATTTAGACCAAATGATGCGATTTTC-CGAGCATGGAA
* * ** * *
1046 AGTTCGAAAAATTGGTCGAAGGAATGGATCGTCTTGAATACTCTCAGGAACTTAAGTCACAAAAG
382 TGTTCGAAAAATTGGTCGAAGGAATGGATCG-CTTGAATACTAT-AGGAACCAAAGTTATAAAAG
* * ** *
1111 AGCTACTAAATGTTCCG-CAAGAACGGAAGTTCGTCCAAAAACCATGAGAGAAACAATTCTCACG
445 AACTACTAAAT-TTCTGACAAGTTCGGAAGTTCGTCCAAAAACCAGGAGAGAAACAATTCTCACG
* * * *
1175 TAAATAAGTTTTTAATTCAAAGACCAAAAATTGTTTAGAAAATGATAACCTATTTAGACCAAATG
509 TAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATG
* *
1240 ATGTCATTTCTCGAGCATGGAATGCTTGAAAAATTGCACAAAGGAATGGATCACCTTTAATAGTG
574 ATGTCATTTCTCGAGCATGGAATGCTTGAAAAATTGCTCAAAGGAATGGATCACCTTTAATAGTT
*
1305 TATGG
639 TAAGG
1310 AACCGAAGTTAT-AAAGCAACTGATAAAAAGTTTGACAAGTTTAGAAGTTCGTCCAAGAACCAAG
1 AACCGAAGTTATAAAAG-AACTG-TAAAAAGTTTGACAAGTTT-GAAGTTCGTCCAAGAACCAAG
* * * *
1374 AGAGAAACAATTATCATGTAAAT-A-TTTTTAAATCAAAGACGAAAAGTTGATTACAAAATGAAA
63 AGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAA
* * * * *
1437 AATTATTTAGACCAAACGATGCGATTTCTCAAGCATAGAATGTTTAGAAAATTGCTCGAAGGAAT
128 AACTATTTAGACCAAACGATGCGATTTCCCGAGCATGGAATGTTTAGAAAATTGCTCAAAGGAAT
* ** * *
1502 GGATCGTCTTGAATACTTTAAGGAGCTGAAGTTATAAAAGAAGTCATAAAAGCTTGACAAGTTCG
193 GGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGCTTGACAAGTTCG
* *
1567 AAAGTTCAGCTAAGAACAAAGAGAGAAATAGTTCTCACGTAAATAAGTTTTTAATTCAAAGAGCA
258 AAAGTTCAGCCAAGAACAAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGA-CA
* *** *
1632 AAAGTTGTTTACGAAATGACAAACTATTTAGACCAAATAATGCGATTTTTTTAGCATTGAATGTT
322 AAAGTTGTTTAC-AAATGACAAACTATTTAGACCAAATGATGCGATTTTCCGAGCATGGAATGTT
* * * * *
1697 CGAAAAAATGGTCGAAGG-ATAGGATCAGCTTGAATAATTTAAGGAACCGAAGTTATAAATGAAC
386 CGAAAAATTGGTCGAAGGAAT-GGATC-GCTTGAATACTAT-AGGAACCAAAGTTATAAAAGAAC
* * * *
1761 T-CGTAAAAATT-TGACAAGTTCGAAAGTTCATCCAAAAACCAAGAGAGAAACAATTCTCACGTA
448 TAC-T-AAATTTCTGACAAGTTCGGAAGTTCGTCCAAAAACCAGGAGAGAAACAATTCTCACGTA
** * * ***
1824 AATAAGTTTCCAATTCAAAGACCAAAAGTTGTTTACAAAATTAAAAAAAC-ATTTAGAATGAATG
511 AATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAA-T-GACAAACTATTTAGACCAAATG
* * * * * *
1888 ATG-CGATTTCCCGAGCCTGGAATGCTAGAAAAATTAG-TCGAAGGAATGGGTCATCTTTAAT-G
574 ATGTC-ATTTCTCGAGCATGGAATGCTTGAAAAATT-GCTCAAAGGAATGGATCACCTTTAATAG
* * *
1950 CTCTCAGA
637 -TTTAAGG
* * *
1958 AACCGAAGTTATAAAAGAACGGGAAATA-TTTGACAAGTTCTGAAGTTCGTCCAAGAACCAAGAG
1 AACCGAAGTTATAAAAGAACTGTAAAAAGTTTGACAAGTT-TGAAGTTCGTCCAAGAACCAAGAG
* *
2022 AGAAACAATCCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT-TTTACAAAATGACAAA
65 AGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAA
* *
2086 CTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTT-GAAAAATTGCACAAAGGAATG
130 CTATTTAGACCAAACGATGCGATTTCCCGAGCATGGAATGTTTAG-AAAATTGCTCAAAGGAATG
**************************************************
2150 GNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
194 G--------------ATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAG
********************************************* * * * *
2215 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCTCATGCAAATAAATTTTA
245 CTTGACAAGTTCGAAAGTTCAGCCAAGAACAAAGAGAGAAATAATTCTCACGTAAATAAGTTTTT
* * * *
2280 AATTCAAACACCAAAAGTTGTTTACCATATGACAAACTATTTTGACCAAATGATGCAATTTTTCC
310 AATTCAAAGA-CAAAAGTTGTTTA-CAAATGACAAACTATTTAGACCAAATGATGCGA-TTTTCC
* * * ** *
2345 GAGAATGGAATGTTCGAAAAATTGGTTGAAGGAATGCATCTTTTTAAATACTAATAGGAACCAAA
372 GAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATGGATC-GCTTGAATACT-ATAGGAACCAAA
** * * * * *
2410 GTTATAAAAGAACTTGTAAATTTTTGAAAAGTTCGGAAGTTCATCCAAGAA-CAGGGAGAAAAAC
435 GTTATAAAAGAACTACTAAATTTCTGACAAGTTCGGAAGTTCGTCCAAAAACCA-GGAGAGAAAC
2474 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
499 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
* * * *
2539 AGACCAAATGATG-CGA-TTCTCGAGCATGGAATGTTTGGAAAATGGCTCAAATGAATGGAT-AG
564 AGACCAAATGATGTC-ATTTCTCGAGCATGGAATGCTTGAAAAATTGCTCAAAGGAATGGATCA-
* * * *
2601 TCTTGAATACTTTAGGG
627 CCTTTAATAGTTTAAGG
* * * * * *
2618 AACCAAAGTTGTAAAAGAACTCGT-AAAAGTTTGACTAGTCTGTAAGTTCGTTCGAGAACCAAGA
1 AACCGAAGTTATAAAAGAACT-GTAAAAAGTTTGACAAGTTTG-AAGTTCGTCCAAGAACCAAGA
* * * * * *
2682 GGGAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAAACCAAAATTTGTTTACAAAATCAAAA
64 GAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAA
* ** *
2747 ACTATTTAGACCAAAAGATGCGATTTCTGGAGCATGGAATGTTCAG-AAATTGGCTCAAAGGAAT
129 ACTATTTAGACCAAACGATGCGATTTCCCGAGCATGGAATGTTTAGAAAATT-GCTCAAAGGAAT
* * * * * *
2811 GGATAGTCTTCAATACTTTGAGGAACCAAAGTTATGAACGAACTTGTAAAAAG-TTCGACCAA-T
193 GGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGT-AAAAGCTT-GA-CAAGT
* * * * * *
2874 TCGTATGTTC-GTCCTAGAACCACA-AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCGAA
255 TCGAAAGTTCAG-CCAAGAA-CAAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAA
* * * * *
2937 GACTAAAAGTTGTTTACATAATGACAAAGTTTTTAGACCGAATGATACGA-TTCCCGAGCATGGA
318 GAC-AAAAGTTGTTTACA-AATGACAAACTATTTAGACCAAATGATGCGATTTTCCGAGCATGGA
* * * ** * *
3001 AAGTTCGAACAATTGGTCGAAGGAATGGATCGTCTTGAATACTCTCAGGAACTTAAGTCACAAAA
381 ATGTTCGAAAAATTGGTCGAAGGAATGGATCG-CTTGAATACTAT-AGGAACCAAAGTTATAAAA
* * ** *
3066 GAGCTACTAAATGTTCCG-CAAGAACGGAAGTTCGTCCAAAAACCATGAGAGAAACAATTCTCAC
444 GAACTACTAAAT-TTCTGACAAGTTCGGAAGTTCGTCCAAAAACCAGGAGAGAAACAATTCTCAC
* * * *
3130 GTAAATAAGTTTTTAATTCAAAGACCAAAAATTGTTTAGAAAATGATAACCTATTTAGACCAAAT
508 GTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAAT
* * *
3195 GATGTCATTTCTCGAGCATGGAATGCTTGAAATATTGCACAAAGGAATGGATCACCTTGAATAGT
573 GATGTCATTTCTCGAGCATGGAATGCTTGAAAAATTGCTCAAAGGAATGGATCACCTTTAATAGT
3260 TTAAGG
638 TTAAGG
* * *
3266 AACCGAAGTTATAAAGGAACTGATAAAAAG-TTAACCAGTTTAGAAGTTCGTCCAAGAACCAAGA
1 AACCGAAGTTATAAAAGAACTG-TAAAAAGTTTGACAAGTTT-GAAGTTCGTCCAAGAACCAAGA
* * *
3330 GAGAAACAATTGTCATGTAAAT-A-TTTTTAATTCAAAGACGAAAAGTTGATTACAAAATGAAAA
64 GAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAA
* ** * * **
3393 ACTATTTAGACCAAACGATGCGATTTCCCAAGTGTAGAATG-TTCGAAAAATTGCTTGAAGGAAT
129 ACTATTTAGACCAAACGATGCGATTTCCCGAGCATGGAATGTTTAG-AAAATTGCTCAAAGGAAT
* * ** *
3457 GGATCATCTTGAATACTTGAAGGAACTGAAGTTATAAAAGAACTCATAAAAGCTTGACAAGTTCG
193 GGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGCTTGACAAGTTCG
** * *
3522 ATTGTTCAGCCAAGAACAAAGAGAGAAACAGTTCTCACGTAAATAAGTTTTTAATTCAAAGAGCA
258 AAAGTTCAGCCAAGAACAAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGA-CA
3587 AAAGTTGTTTACGAAATGACA
322 AAAGTTGTTTAC-AAATGACA
3608 NNNNNNNNNN
Statistics
Matches: 2272, Mismatches: 569, Indels: 212
0.74 0.19 0.07
Matches are distributed among these distances:
644 6 0.00
645 138 0.06
646 522 0.23
647 645 0.28
648 246 0.11
649 135 0.06
650 6 0.00
651 115 0.05
659 2 0.00
660 71 0.03
661 168 0.07
662 214 0.09
663 4 0.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.27
Consensus pattern (643 bp):
AACCGAAGTTATAAAAGAACTGTAAAAAGTTTGACAAGTTTGAAGTTCGTCCAAGAACCAAGAGA
GAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAAC
TATTTAGACCAAACGATGCGATTTCCCGAGCATGGAATGTTTAGAAAATTGCTCAAAGGAATGGA
TCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGCTTGACAAGTTCGAAA
GTTCAGCCAAGAACAAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACAAAAG
TTGTTTACAAATGACAAACTATTTAGACCAAATGATGCGATTTTCCGAGCATGGAATGTTCGAAA
AATTGGTCGAAGGAATGGATCGCTTGAATACTATAGGAACCAAAGTTATAAAAGAACTACTAAAT
TTCTGACAAGTTCGGAAGTTCGTCCAAAAACCAGGAGAGAAACAATTCTCACGTAAATAAGTTTT
TAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTCATTTCTC
GAGCATGGAATGCTTGAAAAATTGCTCAAAGGAATGGATCACCTTTAATAGTTTAAGG
Found at i:4312 original size:326 final size:327
Alignment explanation
Indices: 3682--4335 Score: 747
Period size: 327 Copynumber: 2.0 Consensus size: 327
3672 TTTAATTCAA
* **
3682 AGACGAAAAGTTGATTACAAAATGAAAAACTATTTAGACCAAACGATGCGATTTCCCAAGTGTAG
1 AGACCAAAAGTTGATTACAAAATGAAAAACTATTTAGACCAAACGATGCGATTTCCCAAGCATAG
*** *
3747 AATGTTCGAAAAATTGCTTGAAGGAATGGATCATCTTGAATACTTGAAGGAACTGAAGTTATAAA
66 AATGTTCGAAAAATTGCAAAAAGGAATGGATCACCTTGAATACTTGAAGGAACTGAAGTTATAAA
* * *
3812 AGAACTCATAAAAGCTTGACAAGTTCGATTGTTCAGCCAAGAACAAAGAGAGAAACAGTTCTCAC
131 AGAACTCATAAAAGCTTGACAAGTTAGATAGTTCAGCCAAGAACAAAGAGAGAAACAATTCTCAC
* * * * *
3877 GTAAATAAGTTTTTAATTCAAAGAGCAAAAGTTGTTTACGAAATGACAAACTATTTAGACCAAAT
196 GTAAATAAGTTATTAATTCAAAGAGCAAAAGTTGATTACAAAATGAAAAACTATTTAGACCAAAC
** * *
3942 AATGCGATTCTTTTAGCATTGAATGTTTGAAAAAATGGTCGAAGG-ATAGGATCGACTTGAATAA
261 AATGCGATTCTTCAAGCATAGAATGTTTGAAAAAATGCTCGAAGGAAT-GGATCGACTTGAATAA
4006 TTT
325 TTT
* * * * * * * * *
4009 AGACCAAAATTTGTTTAGAAAATGATAACCTATTTAGACCAAATGATGTC-ATTTCTCGAGCATG
1 AGACCAAAAGTTGATTACAAAATGAAAAACTATTTAGACCAAACGATG-CGATTTCCCAAGCATA
* * *
4073 GAATGCTT-GAAAAATTGCAAAAAGGAATGGATCACCTTTAATAGTTTAAGGAA-TCGAAGTTAT
65 GAATG-TTCGAAAAATTGCAAAAAGGAATGGATCACCTTGAATACTTGAAGGAACT-GAAGTTAT
* * * *
4136 AAAGGAACTGATAAAAAGTTTGACAAGTTTAGA-AGTTC-GTCCAAGAACCAAGAGAGAAACAAT
128 AAAAGAACTCAT-AAAAGCTTGACAAG-TTAGATAGTTCAG-CCAAGAACAAAGAGAGAAACAAT
* * *
4199 TGTCATGTAAA-AA-TTATTAATTCAAAGA-CGAAAAGTTGATTACAAAATGAAAAATTATTTAG
190 TCTCACGTAAATAAGTTATTAATTCAAAGAGC-AAAAGTTGATTACAAAATGAAAAACTATTTAG
* * *
4261 ACCAAACGATGCGATT-TCTCAAG-AGTAGAATGTTT-AGAAAATTGCTCGAAGGAATGGATCGT
254 ACCAAACAATGCGATTCT-TCAAGCA-TAGAATGTTTGA-AAAAATGCTCGAAGGAATGGATCGA
*
4323 CTTGAATACTTT
316 CTTGAATAATTT
4335 A
1 A
4336 AGGAACTGAA
Statistics
Matches: 274, Mismatches: 42, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
325 4 0.01
326 100 0.36
327 116 0.42
328 50 0.18
329 4 0.01
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (327 bp):
AGACCAAAAGTTGATTACAAAATGAAAAACTATTTAGACCAAACGATGCGATTTCCCAAGCATAG
AATGTTCGAAAAATTGCAAAAAGGAATGGATCACCTTGAATACTTGAAGGAACTGAAGTTATAAA
AGAACTCATAAAAGCTTGACAAGTTAGATAGTTCAGCCAAGAACAAAGAGAGAAACAATTCTCAC
GTAAATAAGTTATTAATTCAAAGAGCAAAAGTTGATTACAAAATGAAAAACTATTTAGACCAAAC
AATGCGATTCTTCAAGCATAGAATGTTTGAAAAAATGCTCGAAGGAATGGATCGACTTGAATAAT
TT
Found at i:6353 original size:215 final size:215
Alignment explanation
Indices: 6085--6610 Score: 653
Period size: 215 Copynumber: 2.4 Consensus size: 215
6075 CGCAAGTACG
* * *
6085 GAAGTTCGTCCAAAAACCATGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCGAAGACCA
1 GAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCA
* * * * * * * *
6150 AAAATTGTTTAGAAAATGATAACCTATTTAGACCAAATGATGTCATTTCTCGAGCATGGAATGCT
66 AAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAACGATGTCATTTCCCAAGCATAGAATGCT
* *
6215 AGAAAAATTGCACAAAGGAATGGATCACCTTTAATAGTTTAAGGAACCAAAGTTATAAAAGAACT
131 AGAAAAATTGCACAAAGGAATGGATCACCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACT
* *
6280 GATAAAAAGTTTGACAAGTTTA
196 CAT-AAAAGCTTGACAAG-TTA
* * *
6302 GAAGTTCGTCCAAGAACCAAGAGAGAAACAATTGTCATGTAAAT-A-TTTTTAATTCAAAGACGA
1 GAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCA
* * *
6365 AAAGTTGATTACAAAATGAAAAACTATTTAGACCAAACGATGTGATTTCCCAAGCATAGAATGTT
66 AAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAACGATGTCATTTCCCAAGCATAGAATGCT
* * * * ** **
6430 CGAGAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACT
131 AGAAAAATTGCACAAAGGAATGGATCACCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACT
*
6495 CATAAAAGCTTGACAAGTTC
196 CATAAAAGCTTGACAAGTTA
* * * * *
6515 GAAAGTTCAG-CCAAGAACAAAGAGGGAAGCAGTTCTCACGTAAATAAGTTTTTAATTCAAAGAG
1 G-AAGTTC-GTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * *
6579 CAAAAGTTGTATACTAAATGACAAACTATTTA
64 CAAAAGTTGTTTACAAAATGAAAAACTATTTA
6611 CACAAATAAT
Statistics
Matches: 263, Mismatches: 42, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
213 3 0.01
214 48 0.18
215 129 0.49
216 43 0.16
217 40 0.15
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (215 bp):
GAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCA
AAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAACGATGTCATTTCCCAAGCATAGAATGCT
AGAAAAATTGCACAAAGGAATGGATCACCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACT
CATAAAAGCTTGACAAGTTA
Done.