Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01006979.1 Kokia drynarioides strain JFW-HI SEQ_121585, 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: 4929
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Found at i:2200 original size:217 final size:215
Alignment explanation
Indices: 1628--4927 Score: 2994
Period size: 216 Copynumber: 15.2 Consensus size: 215
1618 ATTTCGTTTA
* * * * ** *
1628 TTTAAGGAACTGAAGTTATAACAGAAATAGTAAAAGTTTTCCTAGTTC-GAAAGTTCGTCCAAGA
1 TTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAG-AAGTTCGTCCAAGA
* * ** *
1692 ACCAAGAGAGAAAGAATT-TACACA-TAAATAAGTATTTAATTCAGTGACCAAAAGTTTTTTTA-
65 ACCAAGAGAGAAACAATTCT-CA-AGTAAATAAGTTTTTAATTCAAAGACCAAAAG-TTGTTTAC
* ** * *
1754 AGAAATGACAAACTATTTTGACTGAATGATGCAATTTCCCGAGCATGGACTGTTCTGAATATTGC
127 A-AAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATGTTC-GAAAATTGC
*
1819 TCGAA-GAATTGGATCATCTTGAATAG
190 TCGAAGGAA-TGGATCATCTTGAATAC
* * * * *
1845 TTTAAGGAACCGAAGTTAATAAAAGAAATAGTAAAAGCTTGACAAGTTCAAAAGTTCGTCTAAGA
1 TTTAAGGAACCGAAGTT-ATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGA
* * * *
1910 ATCAAAAGAGAAATAATTCTCACA-TAAATATA-TTTTTAATTCAAAGACCAAAAAGTTGTTTGC
65 ACCAAGAGAGAAACAATTCTCA-AGTAAATA-AGTTTTTAATTCAAAGACC-AAAAGTTGTTTAC
* * * * * * *
1973 AAAATGACAAACTATTTGGATCGAATGATGCTATTTCCCAAGCATGGAATGTTCAGAATATTGAT
127 AAAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATGTTC-GAAAATTGCT
*
2038 CGAAGGAATGGATCTTCTTGAATAC
191 CGAAGGAATGGATCATCTTGAATAC
* * * * *
2063 TTTAAAGAACCAAAGTTATAAAAGAACTCGTAAAAGCTTGACTAGTTCAGAAGTTCGTCTAAGAA
1 TTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAA
* *** * * *
2128 CCAA-AGGAGAAACAATTCTCAAGTAAATAAGTTTTTAGTTTGCAGACGAAAACTTGGTTTTCAA
66 CCAAGA-GAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT-GTTTACAA
* * * * *
2192 AATGACAAATTATTTAGACCAAAAGATGCAATTTCTCGAGCATGGAATGTTTTGAAAATCGCTCG
129 AATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATG-TTCGAAAATTGCTCG
* ** * **
2257 TACAAACGGATGGTCTTGAATAC
193 AAGGAATGGATCATCTTGAATAC
* * * *
2280 TTTAAGGAACCGAAGTTATAAAATAACTCGTAAAAGTTTTACAAGTTCGGTAGTTCGTCCAAGAA
1 TTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAA
* * * *
2345 CTAAGAGAGAGACAAGTT-TCACA-TGAATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTACAA
66 CCAAGAGAGAAACAA-TTCTCA-AGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAA
* * * *
2408 AATGACAAACTATTTAAACCAAAAGATTCGATTT-CCG-GCGAGTGGAATGTTCGAAAATTGCTC
129 AATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGC-A-TGGAATGTTCGAAAATTGCTC
* * *
2471 G-ATGAAGTGGATCATTTATACATAATACAC
192 GAAGGAA-TGGATCATCT-T---GAAT--AC
* * * * * * * * * *
2501 TTGAAGGATCCGATGTTTTAAAAGAACTTGTAAAAGTTTAACAAGTCCGGAGGTTCGTCCAAGAT
1 TTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAA
* * * * *
2566 CCAAGAGAGAAACAAATCCCATGTCAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTCACAAAA
66 CCAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAA
* *** * * * *
2631 TGACAAACTATTTAGATCAAATGATGTGGTTTTCCGAACATTGAATGTTCGAAAAATTTG-TAGA
131 TGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATGTTCG-AAAA-TTGCTCGA
* *
2695 AGGAATGGATCGCAT-AT-AATGC
194 AGGAATGGAT--CATCTTGAATAC
* * * ** *
2717 TTTAAGGAACCTAAGTTTTAAAAGGACTCGTAAAAGTTTGACAAGTTTGGAAGTTCATCCAAGAA
1 TTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAA
* * *
2782 CTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAAACCAAAAGTTGTTTACAAAA
66 CCAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAA
* ** * * * * * *
2847 TGACAAAATATTTAGACCAAATGATGTGATTTCTCGAGCATGGAATGTTTGGAATACTACTTG-A
131 TGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATG-TTCGAAAATTGCTCGAA
*
2911 --AA--GA--ATGTTGAATAC
195 GGAATGGATCATCTTGAATAC
* * *
2926 TTTAAGGAACC-AATGTTATAAAAGAACTCGTAAAAGCTTGAAAAGTTCAGAAGTTCGTCTAAGA
1 TTTAAGGAACCGAA-GTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGA
** * * *
2990 ACTGAGAGCGAAACACTTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAA
65 ACCAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAA
* * *
3055 ATGACAAACTATTTAGACCAAGTGATGCAATTTCTCGAGCATGGAATGTTCACAAAATTGCTCGA
130 ATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATGTTC-GAAAATTGCTCGA
*
3120 AGAAATGGATCATCTTGAATAC
194 AGGAATGGATCATCTTGAATAC
* * * ** *
3142 TTTAAGGAACCGAAGTTATAACAGAAATAGTAAAAGTTTTCCTAGTTC-GAAAGTTCGTCCAAGA
1 TTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAG-AAGTTCGTCCAAGA
* * ** * *
3206 ACCAAGAGAGAAACAACTT-ACACA-TAAATAAGTATTTAATTCAGTGACCGAAAGTTTTTTTA-
65 ACCAAGAGAGAAACAA-TTCTCA-AGTAAATAAGTTTTTAATTCAAAGACCAAAAG-TTGTTTAC
* * * * * * *
3268 AGAAACGGCAAACTATTTTGACCGAATGATGCGATTTCCAGAGCATGGAATGTTCGGAATATTGC
127 A-AAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATGTTC-GAAAATTGC
* *
3333 TCGAAGGATTGGATCATCTTGAATAG
190 TCGAAGGAATGGATCATCTTGAATAC
* * * *
3359 TTTAAGGAACCGAAGTTATTATAGAAGAAATAGTAAAAGCTTGACAAGTTCAGAAGTTCGTCTAA
1 TTTAAGGAACCGAAGTTA-TA-A-AAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAA
* * *
3424 GAATCAAAAGAGAAATAATTCTCACA-TAAATATA-TTTTTAATTCAAAGACCAAAAAGTTGTTT
63 GAACCAAGAGAGAAACAATTCTCA-AGTAAATA-AGTTTTTAATTCAAAGACC-AAAAGTTGTTT
* * * * * *
3487 TCAAAATGACAAACTATTTGGACCGAATGCTGCAATTTTCCGAGCATGGAATGTTCAGAATATTG
125 ACAAAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATGTTC-GAAAATTG
* * **
3552 ATCGAAGGAATGAATGTTCTTGAATAC
189 CTCGAAGGAATGGATCATCTTGAATAC
* * * * ***
3579 TTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAAGCTTGACTAGTTTAGAAGTTCGTTTGAGA
1 TTTAAGGAACCGAAGTTATAAAAGAACTCGT-AAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGA
* * * *** * *
3644 ACCAA-AGGAGAAATAATTCTCACGTAAATAAGTTTTTAGTTTGGAGACCAAAACTTGGTTTTCA
65 ACCAAGA-GAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT-GTTTACA
* * * *
3708 AAATGACAAACTATTTAGACCAAAAGATGCAATTTCTCGAGCATGGAATGTTTTGAAAATCGCTC
128 AAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATG-TTCGAAAATTGCTC
* * **
3773 GTAGAAATGGATGGTCTTGAATAC
192 GAAGGAATGGATCATCTTGAATAC
** * * * * *
3797 TTTAAGGAACCGAAGTTATAAAATTACTAGTAAAAGTTTTACAAGTTCGGTAGTTTGTCCAAGAA
1 TTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAA
* * * *
3862 CCAAGAGAGAGACAATTTTCACA-TGAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAAAAA
66 CCAAGAGAGAAACAATTCTCA-AGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAA
* * * * * * * * **
3926 ATGGCAAACTATTTAAAACAAAAGATTCGATTTTCGGAGGGTGGAATGTTCGAAAATTGCTCG-A
130 ATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATGTTCGAAAATTGCTCGAA
* * *
3990 TGAAGTGGATCATTTATACATAATACAC
195 GGAA-TGGATCATCT-T---GAAT--AC
* * * * * *
4018 TTGAAGGATCC-AATGTTTTAAAAGAACTTGTAAAAATTTTGACAAG-TCCGAAGGTTCGTCCAA
1 TTTAAGGAACCGAA-GTTATAAAAGAACTCGT-AAAAGTTTGACAAGTTCAGAA-GTTCGTCCAA
* * * * *
4081 GAACCAAGAGAGAAACAAATCCCACGTCAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTCACA
63 GAACCAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACA
* * * * *
4146 AAATGACAAACTATTTAGATCAAATGATGCGATTTTCCGAACATTGAATGTTCGAAAAATTTG-T
128 AAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATGTTCG-AAAA-TTGCT
* * *
4210 AGAAGGAATGGATCA-CATAGAATGC
191 CGAAGGAATGGATCATC-TTGAATAC
* * * * * * * *
4235 TTTGAGGAACCTATGTTGTAAAAGAACTAGTAAAAGTTTGACAAGTTCGGAAGTTCATCTAAGAA
1 TTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAA
** * * *
4300 CTTAGAGAGAAAGAATTCTCAGGAAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAA
66 CCAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAA
* * * * * * * * *
4365 TGACAAAATATTTAGACCGAATGATGCGATTTCTCGACCATGGAATGTTTGGAATATTGGTTGAA
131 TGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATG-TTCGAAAATTGCTCGAA
* *
4430 AGAATGGATCACCTTGAATAC
195 GGAATGGATCATCTTGAATAC
** * * *
4451 TTTAAGGAACC-AATGCCATAAAAGAACTCGTAAAAGCTTGAAAAGTTCAGAAGTTCGTCTAAGA
1 TTTAAGGAACCGAA-GTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGA
* *
4515 ACCGAGAGAGAAACAATTCTCACA-TAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACGA
65 ACCAAGAGAGAAACAATTCTCA-AGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAA
* ** *
4579 AATGATAAACTATTTAGACCAGGTGATGCAATTTCTCGAGCATGGAATGTTC-ATAAAGTTGCTC
129 AATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATGTTCGA-AAA-TTGCTC
*
4643 GAAGAAATGGATCATCTTGAATAC
192 GAAGGAATGGATCATCTTGAATAC
* * * ** *
4667 TTTAAGGAACCGAAGTTATAACAGAAATAGTAAAAGTTTTCCTAGTTC-GAAAGTTCGTCCAAGA
1 TTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAG-AAGTTCGTCCAAGA
* * ** * *
4731 ACCAAGAGAGAAACAATT-TACAAATAAATAAGTATTTAATTCAGTGTCCAAAAGTTTTTTTTAC
65 ACCAAGAGAGAAACAATTCT-CAAGTAAATAAGTTTTTAATTCAAAGACCAAAAG--TTGTTTAC
* * * * * * * *
4795 GAAATGACAAACTATTTTGACCGAATGATACGATTTCCCGAGCTTGGAATGTTCGGAATATTGAT
127 AAAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATGTTC-GAAAATTGCT
*
4860 CGAAGGAATGGATCGTCTTGAATAC
191 CGAAGGAATGGATCATCTTGAATAC
* * *
4885 TTTAATGAACCAAAGTTATAAAATAACTCGTAAAAAGTTTGAC
1 TTTAAGGAACCGAAGTTATAAAAGAACTCGT-AAAAGTTTGAC
4928 TA
Statistics
Matches: 2531, Mismatches: 451, Indels: 200
0.80 0.14 0.06
Matches are distributed among these distances:
207 2 0.00
208 5 0.00
209 168 0.07
210 1 0.00
211 2 0.00
212 2 0.00
213 2 0.00
214 11 0.00
215 56 0.02
216 770 0.30
217 487 0.19
218 464 0.18
219 38 0.02
220 173 0.07
221 181 0.07
222 137 0.05
223 22 0.01
224 10 0.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (215 bp):
TTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAA
CCAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAA
TGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGCATGGAATGTTCGAAAATTGCTCGAAG
GAATGGATCATCTTGAATAC
Found at i:2982 original size:654 final size:643
Alignment explanation
Indices: 1678--4919 Score: 2934
Period size: 654 Copynumber: 5.0 Consensus size: 643
1668 CCTAGTTCGA
* * * * **
1678 AAGTTCGTCCAAGAACCAAGAGAGAAAGAATT-TACACATAAATAAGTATTTAATTCAGTGACCA
1 AAGTTC-TCTAAGAACTAAGAGAGAAACAATTCT-CACATAAATAAGTTTTTAATTCAAAGACCA
* * ** * * *
1742 AAAGTTTTTTTA-AGAAATGACAAACTATTTTGACTGAATGATGCAATTTCCCGAGCATGGACTG
64 AAAG-TTGTTTACA-AAATGACAAACTATTTAGACCAAAAGATGCAATTTCTCGAGCATGGAATG
* * *
1806 -TTCTGAATATTGCTCGAAGAATTGGATCATCTTGAATAGTTTAAGGAACCGAAGTTAATAAAAG
127 TTTC-GAAAATTGCTCGAAGAAATGGATCATCTTGAATACTTTAAGGAACCGAAGTT-ATAAAAG
* * * ** * * * * *
1870 AAATAGTAAAAGCTTGACAAGTTCAAAAGTTCGTCTAAGAATCAAAAGAGAAATAATTCTCACAT
190 AACTAGTAAAAGTTTAACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCACACAT
* * * *
1935 AAATATA-TTTTTAATTCAAAGACCAAAAAGTTGTTTGCAAAATGACAAACTATTTGGATCGAAT
255 AAATA-AGTTTTTAATTCAAAGACC-AAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAAT
* * * * * *
1999 GATG-CTATTTCCCAAGCATGGAATGTTCAGAATATTGATCGAAGGAATGGAT-CTTCTTGAATA
318 GATGTCAATTT-CCGAGCATGGAATGTTC-GAAAATTGCTCGAAGGAATGGATCCATCATGAATA
* * * * * * *
2062 CTTTAAAGAACCAAAGTTATAAAAGAACTCGTAAAAGCTTGACTAGTTCAGAAGTTCGTCTAAGA
381 CTTTAAGGAACCGAAGTTTTAAAAGAACTAGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGA
* * *** * * *
2127 ACCAA-AGGAGAAACAATTCTCAAGTAAATAAGTTTTTAGTTTGCAGACGAAAACTTGGTTTTCA
446 ACCAAGA-GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT-GTTTACA
* * * * * *
2191 AAATGACAAATTATTTAGACCAAAAGATGCAATTTCTCGAGCATGGAATGTTTTGAAAATCGCT-
509 AAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATG-TTCG-GAAT-ACTA
* * * *
2255 CGTACAAACGGATGGTCTTGAATACTTTAAGGAACCGAA-GTTATAAAATAACTCGTAAAAGTTT
571 C-TAGAAACGAATGGT-TTGAATACTTTAAGGAACC-AATGTTATAAAAGAACTCGTAAAAGCTT
* *
2319 TACAAGTTCGG
633 GACAAGTTCAG
* * * * *
2330 TAGTTCGTCCAAGAACTAAGAGAGAGACAAGTT-TCACATGAATAAGTTTTTAATTCAAAGACAA
1 AAGTTC-TCTAAGAACTAAGAGAGAAACAA-TTCTCACATAAATAAGTTTTTAATTCAAAGACCA
* * *
2394 AAAGTTGTTTACAAAATGACAAACTATTTAAACCAAAAGATTCGATTTC-CG-GCGAGTGGAATG
64 AAAGTTGTTTACAAAATGACAAACTATTTAGACCAAAAGATGCAATTTCTCGAGC-A-TGGAATG
* * * * * * * *
2457 -TTCGAAAATTGCTCGATGAAGTGGATCATTTATACATAATACACTTGAAGGATCCGATGTTTTA
127 TTTCGAAAATTGCTCGAAGAAATGGATCATCT-T---GAAT--ACTTTAAGGAACCGAAGTTATA
* * * * * *
2521 AAAGAACTTGTAAAAGTTTAACAAGTCCGGAGGTTCGTCCAAGATCCAAGAGAGAAACAAATCCC
186 AAAGAACTAGTAAAAGTTTAACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCAC
** * * *
2586 ATGTCAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTCACAAAATGACAAACTATTTAGATCAA
251 ACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAA
*** * * *
2651 ATGATGTGGTTTTCCGAACATTGAATGTTCGAAAAATTTG-TAGAAGGAATGGATCGCAT-AT-A
316 ATGATGTCAATTTCCGAGCATGGAATGTTCG-AAAA-TTGCTCGAAGGAATGGATC-CATCATGA
* * * * ** *
2713 ATGCTTTAAGGAACCTAAGTTTTAAAAGGACTCGTAAAAGTTTGACAAGTTTGGAAGTTCATCCA
378 ATACTTTAAGGAACCGAAGTTTTAAAAGAACTAGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCA
* *
2778 AGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAAACCAAAAGTTGTTTAC
443 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAC
* * *
2843 AAAATGACAAAATATTTAGACCAAATGATGTGATTTCTCGAGCATGGAATGTTTGGAATACTACT
508 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGGAATACTACT
* *
2908 TGAAA-GAAT-G-TTGAATACTTTAAGGAACCAATGTTATAAAAGAACTCGTAAAAGCTTGAAAA
573 AGAAACGAATGGTTTGAATACTTTAAGGAACCAATGTTATAAAAGAACTCGTAAAAGCTTGACAA
2970 GTTCAG
638 GTTCAG
* * * **
2976 AAGTTCGTCTAAGAACTGAGAGCGAAACACTTCTCATGTAAATAAGTTTTTAATTCAAAGACCAA
1 AAGTTC-TCTAAGAACTAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAA
**
3041 AAGTTGTTTACAAAATGACAAACTATTTAGACCAAGTGATGCAATTTCTCGAGCATGGAATG-TT
65 AAGTTGTTTACAAAATGACAAACTATTTAGACCAAAAGATGCAATTTCTCGAGCATGGAATGTTT
* * *
3105 CACAAAATTGCTCGAAGAAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAACAGAAAT
130 C-GAAAATTGCTCGAAGAAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACT
** * *
3170 AGTAAAAGTTTTCCTAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAACTT-ACACATAAA
194 AGTAAAAGTTTAACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAA-TTCACACATAAA
* ** * * * * * *
3234 TAAGTATTTAATTCAGTGACCGAAAGTTTTTTTA-AGAAACGGCAAACTATTTTGACCGAATGAT
258 TAAGTTTTTAATTCAAAGACCAAAAG-TTGTTTACA-AAATGACAAACTATTTAGACCAAATGAT
* * * * *
3298 G-CGATTTCCAGAGCATGGAATGTTCGGAATATTGCTCGAAGGATTGGAT-CATCTTGAATAGTT
321 GTCAATTTCC-GAGCATGGAATGTTC-GAAAATTGCTCGAAGGAATGGATCCATCATGAATACTT
* * *
3361 TAAGGAACCGAAGTTATTATAGAAGAAATAGTAAAAGCTTGACAAGTTCAGAAGTTCGTCTAAGA
384 TAAGGAACCGAAGTT-TTA-A-AAGAACTAGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGA
* * * * *
3426 ATCAAAAGAGAAATAATTCTCACATAAATATA-TTTTTAATTCAAAGACCAAAAAGTTGTTTTCA
446 ACCAAGAGAGAAACAATTCTCACGTAAATA-AGTTTTTAATTCAAAGACC-AAAAGTTGTTTACA
* * * * * *
3490 AAATGACAAACTATTTGGACCGAATGCTGCAATTT-TCCGAGCATGGAATGTTCAGAATATTGAT
509 AAATGACAAACTATTTAGACCAAATGATGCGATTTCT-CGAGCATGGAATGTTCGGAATACT-A-
* * * * *
3554 CGAAGGAATGAATGTTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAAGCTT
571 C-TAGAAACGAATGGT-TTGAATACTTTAAGGAACCAATGTTATAAAAGAACTCGT-AAAAGCTT
* *
3619 GACTAGTTTAG
633 GACAAGTTCAG
* * * * * * ***
3630 AAGTTCGTTTGAGAACCAA-AGGAGAAATAATTCTCACGTAAATAAGTTTTTAGTTTGGAGACCA
1 AAGTTC-TCTAAGAACTAAGA-GAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCA
* *
3694 AAACTTGGTTTTCAAAATGACAAACTATTTAGACCAAAAGATGCAATTTCTCGAGCATGGAATGT
64 AAAGTT-GTTTACAAAATGACAAACTATTTAGACCAAAAGATGCAATTTCTCGAGCATGGAATGT
* * * ** **
3759 TTTGAAAATCGCTCGTAGAAATGGATGGTCTTGAATACTTTAAGGAACCGAAGTTATAAAATTAC
128 TTCGAAAATTGCTCGAAGAAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAAC
* * * * ** *
3824 TAGTAAAAGTTTTACAAGTTCGGTAGTTTGTCCAAGAACCAAGAGAGAGACAATTTTCACATGAA
193 TAGTAAAAGTTTAACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCACACATAAA
* * * * *
3889 TAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAAAAAATGGCAAACTATTTAAAACAAAAGAT-T
258 TAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGT
* * ** * *
3953 CGATTTTCGGAGGGTGGAATGTTCGAAAATTGCTCG-ATGAAGTGGATCATTTATACAT-AATAC
323 C-AATTTCCGAGCATGGAATGTTCGAAAATTGCTCGAAGGAA-TGGATC---CAT-CATGAAT--
* * * * *
4016 ACTTGAAGGATCC-AATGTTTTAAAAGAACTTGTAAAAATTTTGACAAG-TCCGAAGGTTCGTCC
380 ACTTTAAGGAACCGAA-GTTTTAAAAGAACTAGT-AAAAGTTTGACAAGTTCAGAA-GTTCGTCC
* * * *
4079 AAGAACCAAGAGAGAAACAAATCCCACGTCAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTCA
442 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * * * * *
4144 CAAAATGACAAACTATTTAGATCAAATGATGCGATTT-TCCGAACATTGAATGTTCGAAAAATTT
507 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCT-CGAGCATGGAATGTTCGGAATACTA
* * * * * * * * *
4208 GTAG-AAGGAATGGATCACATAGAATGCTTTGAGGAACCTATGTTGTAAAAGAACTAGTAAAAGT
571 CTAGAAACGAATGG-T----TTGAATACTTTAAGGAACCAATGTTATAAAAGAACTCGTAAAAGC
*
4272 TTGACAAGTTCGG
631 TTGACAAGTTCAG
* * *
4285 AAGTTCATCTAAGAACTTAGAGAGAAAGAATTCTCAGGA-AAATAAGTTTTTAATTCAAAGACCA
1 AAGTTC-TCTAAGAACTAAGAGAGAAACAATTCTCA-CATAAATAAGTTTTTAATTCAAAGACCA
* * * * *
4349 AAAGTTGTTTACAAAATGACAAAATATTTAGACCGAATGATGCGATTTCTCGACCATGGAATGTT
64 AAAGTTGTTTACAAAATGACAAACTATTTAGACCAAAAGATGCAATTTCTCGAGCATGGAATGTT
* * * * * **
4414 TGGAATATTGGTTGAA-AGAATGGATCACCTTGAATACTTTAAGGAACC-AATGCCATAAAAGAA
129 TCGAAAATTGCTCGAAGA-AATGGATCATCTTGAATACTTTAAGGAACCGAA-GTTATAAAAGAA
* * * * * *
4477 CTCGTAAAAGCTTGAA-AAGTTCAGAAGTTCGTCTAAGAACCGAGAGAGAAACAATTCTCACATA
192 CTAGTAAAAG-TTTAACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCACACATA
* * **
4541 AATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACGAAATGATAAACTATTTAGACCAGGTGAT
256 AATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGAT
* *
4606 G-CAATTTCTCGAGCATGGAATGTTC-ATAAAGTTGCTCGAAGAAATGGAT-CATCTTGAATACT
321 GTCAATTTC-CGAGCATGGAATGTTCGA-AAA-TTGCTCGAAGGAATGGATCCATCATGAATACT
* * * ** *
4668 TTAAGGAACCGAAGTTATAACAGAAATAGTAAAAGTTTTCCTAGTTC-GAAAGTTCGTCCAAGAA
383 TTAAGGAACCGAAGTTTTAAAAGAACTAGTAAAAGTTTGACAAGTTCAG-AAGTTCGTCCAAGAA
** * ** * * *
4732 CCAAGAGAGAAACAATT-TACAAATAAATAAGTATTTAATTCAGTGTCCAAAAGTTTTTTTTACG
447 CCAAGAGAGAAACAATTCT-CACGTAAATAAGTTTTTAATTCAAAGACCAAAAG--TTGTTTACA
* * * * * *
4796 AAATGACAAACTATTTTGACCGAATGATACGATTTCCCGAGCTTGGAATGTTCGGAATATTGATC
509 AAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGGAATACT-A-C
* * * * * * * *
4861 GAAGGAATGGATCGTCTTGAATACTTTAATGAACCAAAGTTATAAAATAACTCGTAAAA
572 -TAGAAACGAATGGT-TTGAATACTTTAAGGAACCAATGTTATAAAAGAACTCGTAAAA
4920 AGTTTGACTA
Statistics
Matches: 2104, Mismatches: 396, Indels: 182
0.78 0.15 0.07
Matches are distributed among these distances:
640 3 0.00
641 106 0.05
642 77 0.04
643 7 0.00
644 1 0.00
645 81 0.04
646 220 0.10
647 28 0.01
648 71 0.03
649 36 0.02
650 131 0.06
651 54 0.03
652 70 0.03
653 126 0.06
654 517 0.25
655 355 0.17
656 132 0.06
657 69 0.03
658 7 0.00
659 13 0.01
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (643 bp):
AAGTTCTCTAAGAACTAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAA
AGTTGTTTACAAAATGACAAACTATTTAGACCAAAAGATGCAATTTCTCGAGCATGGAATGTTTC
GAAAATTGCTCGAAGAAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTAG
TAAAAGTTTAACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCACACATAAATAA
GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTCAA
TTTCCGAGCATGGAATGTTCGAAAATTGCTCGAAGGAATGGATCCATCATGAATACTTTAAGGAA
CCGAAGTTTTAAAAGAACTAGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAG
AAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACT
ATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGGAATACTACTAGAAACGAATGGT
TTGAATACTTTAAGGAACCAATGTTATAAAAGAACTCGTAAAAGCTTGACAAGTTCAG
Done.