Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01001480.1 Kokia drynarioides strain JFW-HI SEQ_113011, 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: 4172
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Found at i:617 original size:216 final size:215
Alignment explanation
Indices: 5--4172 Score: 4019
Period size: 216 Copynumber: 19.4 Consensus size: 215
1 GAGG
* * * **
5 AACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGTTTACCAAATGACAAA-TA
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * * ** * ** *
69 GTTTAGAAAAAATGATACAATTTCCCAAGCATGAAATGTTTAGAAAATTGCTCAAAGGAATGGAT
66 -TTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGAT
** * * *
134 CGTCATGAATACTTTGTGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGCCAAGTTCGAAAG
130 CGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAG
* *
199 TTCATCCAAGAACCAAGATAGA
195 TTCGTCCAAGAA-CAAGAGAGA
* * * * * * *
221 AACAACTCTCATGTCAATAAATTTTTCATTGAAAGACCAAAAGTAGTTTAGAAAATGACAAAATA
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * ** * * *
286 -TT--ACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCTACGGAATGGATT
66 TTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATC
* * * * * *
348 ATCCTGAATACTTTAAGAAACCGAAGTTATT-GAAGAACTCGTAAAAGTTTGTCAAGTTTGGAAG
131 GTCATGAATACTTTAAGGAACTGAAGTT-TTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAG
* * *
412 TTCATCTAAGAACAAGGAGAAA
195 TTCGTCCAAGAACAA-GAGAGA
* **
434 AACAACTCTCGCGTAAAT-AGATTTTTAATTCAAAGATAAAAAGTTGTTTAGAAAATGACAAACT
1 AACAACTCTCACGTAAATAAG-TTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACT
* * *
498 ATTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAGAATTGATCAAAGGGAA-GGA
65 ATTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAA-GGAATGGA
* * * *
562 TCGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCATGAAACTTTGTCAAGTTCGAAA
129 TCGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAA
627 GTTCGTCCAAGAACAAAGAGAGA
194 GTTCGTCCAAGAAC-AAGAGAGA
* * * *
650 AACAACTATCACGTAAATAACTTTTTAATTTATAGACCAAAAGTTGTTTAGAAAATGACAAACTA
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* ** * ** * *
715 TTTAGACATAATGATATGA-TTCCGCGTGCTTGGAATGTTCAAAAAATTGCTCGAAAGAAAGGAT
66 TTTAGACAAAATGATGCGATTTCC-CGTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGAT
* * * ** *
779 CGTCATGAATTCTTTAAGGAACTGAAGTTTTAAAAGAACTCGCAAAACTTCATCAAGTTCAGAAG
130 CGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAG
*
844 TTCGTCCAAGAACAAAAAGAGA
195 TTCGTCCAAGAAC-AAGAGAGA
* * * * * * *
866 AACAATTCTCACGTAAATAAGATTTTAATTTAGAGATCATAAGTTGTTTATAAAATGACAAACTA
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * * * * * * *
931 TTTAGACCAAACGATGTGTTTTCCCGAGCATGGAATGTTCGGAAAATTGTTTGAAGGAATGGATT
66 TTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATC
* * * * * * *
996 GTCAGGAGTACTTTAAGGAAC-GAAATTTATAGATGAACTAGTAAAA-TTT-TCCAAGTTCAGAA
131 GTCATGAATACTTTAAGGAACTGAAGTTT-TAAAAGAACTCGTAAAAGTTTGT-CAAGTTCGGAA
*
1058 GTTCGTCCAAGAACCAAGAGAAA
194 GTTCGTCCAAGAA-CAAGAGAGA
* *
1081 AATCAACTCTCACGTAAATAAG-TTTTCATTCAAAGACTAAAAGTTGTTTAGAAAATGACAAACT
1 AA-CAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACT
* * * *
1145 ATTTTGACATAATGATGCGATTCCCCGTG-ATTGGAATGTTCGAAAAATTGCTCGAAGGGAA-GG
65 ATTTAGACAAAATGATGCGATTTCCCGTGCA-TGGAATGTTCGGAAAATTGCTCGAA-GGAATGG
* * * *
1208 ATCATCATGAGTACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTGAAACTTTGTCAAGTTCGGA
128 ATCGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGA
*
1273 AGTTCATCCAAGAACAAAGAGAGA
193 AGTTCGTCCAAGAAC-AAGAGAGA
* * *** * *
1297 AACAACTCTCACATAAATAACTTTTTAATTTGTAGACCAAAAGTTGTTTAGAAAATAAAAAACTA
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * * * * * *
1362 TTTAGACATAATGATACGATTCCCCGTGCTTGGAATGTTCGAAAAATTGCTCGAAGTAAAGGATC
66 TTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATC
* * * * * *
1427 GTCATGAATACTTTAAGGAATTGAAGTTTTAAAAGAACTCCTGAAACTTCGTCAAGTTTGGAAGT
131 GTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGT
1492 TCGTCCAAGAACAATGAGAGA
196 TCGTCCAAGAACAA-GAGAGA
* * *
1513 AACAACTCTCACGTAAATAACTTTTTAATTTATAGACCAAAAGTTGTTTAGAAAATGACAAACTA
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * * * * *
1578 TTTAGACATAATCATGCGA-TTCCCTGTGCTTGGAATGTTTGGAAAATTGCTCGAAGTAAAGGAT
66 TTTAGACAAAATGATGCGATTTCCC-GTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGAT
* * * * * *
1642 CGGCATGAATACTTTAAGGAACAGAAGTTTTAAAAGAACTCGTGAAACTTCGTCAAGTTTGGAAG
130 CGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAG
*
1707 TTCGTCCAAGAACAAAGAAAGA
195 TTCGTCCAAGAAC-AAGAGAGA
* * * *
1729 AACAACTCTCACGTAAATAACTTCTTAATTTATAGACCAAAAGTTGTTTAGAAAATGACAAACTA
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * * * * * * ** *
1794 TTTAGACATAATGATGAGATTCCCCGTGCTTGGATTGTTTGGAAAATTTCTCGAAATAAAGGATC
66 TTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATC
* * * * * * * * *
1859 GACATGAATACTTTAATGAACCGAAGTTATAAAACAACTGGTAAAAAGTTTGTGACGTTCGAAAG
131 GTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGT-AAAAGTTTGTCAAGTTCGGAAG
* * *
1924 TTTGTCCATGATCCAAGAG-GTA
195 TTCGTCCAAGA-ACAAGAGAG-A
* * * ***
1946 ATA-AATTCTCACGTAAATAAGTTTTTAATTCAATGACCAAAAGTTGTATCCCAAATGACAAACT
1 A-ACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACT
* ** * * *
2010 ATTTAGACAAAATGATGTGATTTCCCAAGCAAGGAATGTTCAGAAAATTGCTTGAAGGAATGGAT
65 ATTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGAT
* * * * * * * * **
2075 CGTCATGAATACCTTAAAGAACCGAAGTTATAGAAGAACTCGTCACAGTTTGTCAAATTTAGAAG
130 CGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAG
* * * *
2140 TTCATCCAATATCCAAGAGAGG
195 TTCGTCCAAGA-ACAAGAGAGA
* * * **
2162 AACAATTCTCATGAAAATAAGTTTTTCTTTCAAAGACCAAAAGTTG--T-G---A--A-AAA-TA
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* ** * * *
2217 GTTTAGAAAAAATGATGCGATTTCCCAAGCATGAAATCTTCGGAAAATTGCTCGAAAGAATGGAT
66 -TTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGAT
* * * * * **
2282 CGTCATGAATACCTTATGGAACTAAAGTTATAAAAGAACTCGTAAAAGTTTGCCAAGTTCAAAAG
130 CGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAG
* * *
2347 TTCATCCAATAACCAAGATAGA
195 TTCGTCCAAGAA-CAAGAGAGA
* * * * *
2369 AACAACTCTCACGTCAATAAGTTTTTCATTGAAAGACCAAAAGTAGTTTAGAAAATGACAAATTA
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * * * * * * *** *
2434 TTTAGACCAAATTATACGATTTCTCGAGCAAGGAATGATAAAAAAATTGCTC-AATGGAATTGAT
66 TTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAA-GGAATGGAT
* * * * * * * *
2498 TGTCCTGAATGC--T----AACCGTAGTTGTT-AAAGAAGTCGTAAAAGTTTGTCAACTTTGGAA
130 CGTCATGAATACTTTAAGGAACTGAAGTT-TTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAA
* * *
2556 GTTCATCTAAGAACCAAGAGAAA
194 GTTCGTCCAAGAA-CAAGAGAGA
* ** *
2579 AACAACTCTCGCGTAAAT-AGATTTTTAATTCAAAGATAAAAAGTTGTTTAGAAAATGATAAACT
1 AACAACTCTCACGTAAATAAG-TTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACT
* *
2643 ATTTAGAC-AAATGATGCGATTTCCCGCGCATGGAATGTTCGGAAAATTG-TTGAAAGGAATGGA
65 ATTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCG-AAGGAATGGA
* * * ** **
2706 TCGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTTGCAAAACTTCATCAAGTTTAGAA
129 TCGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAA
*
2771 GTTTGTCCAAGAACAAAGAGAGA
194 GTTCGTCCAAGAAC-AAGAGAGA
* * * * *
2794 AACAATTCTCACGTAAATAAGATCTTAATTTAGAGACCAAAAGTTGTTTAGAAAATGACAAACTA
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * * * * * * *
2859 TTTAGACAGAATGATACGATTCCCCGTGCTTGGAATGTTCAGAAAATTGTTTGAAGGAATGGATT
66 TTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATC
* * * * *
2924 GTCATGAATACTTTAAGGAAC-GAAAGTTATAGATGAACTGGTAAAAGTTT-TCCAAGTTCAGAA
131 GTCATGAATACTTTAAGGAACTG-AAGTTTTAAAAGAACTCGTAAAAGTTTGT-CAAGTTCGGAA
2987 GTTCGTCCAAGAACCAAGAGAGAGAGA
194 GTTCGTCCAAGAA-C---A-AGAGAGA
* * *
3014 AACAACTCTTACGTAAATAAGTTTTTCATTCAAAAACCAAAAGTTGTTTAGAAAATGACAAACTA
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * * * * * *
3079 TTTAGACATAATGAAGCGATTCCCCGTGCTTGGAATTTTTGAAAAATTGCTCGAAGGTAA-GGAT
66 TTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAAGG-AATGGAT
** * * *
3143 CGTCATGAATACTTTAAGGAGTTGAAGTTTTAAAAGAACTCGTGAAACTTCGTCAAGTTCGGAAG
130 CGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAG
3208 TTCGTCCAAGAACAAAGAGAGA
195 TTCGTCCAAGAAC-AAGAGAGA
* * * * * *
3230 AACAACTCTCATGTAAATAACTTTTTAATTTATAGACCAAAAGTTGTTTAGAAAAAGACAAACTC
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * ** * * * * * *
3295 TTTAGACATAATGATGCAATCCCCCATGCTTGGAATGTTTGGAAAATTGCTCGAAGTAAAGGATA
66 TTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATC
* ** * * *
3360 GTCATGAATACTTTAATGAACCAAAGTTATAAAACAACT-GATAAAAGTTTGTGAAGTTC-GAAT
131 GTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCG-TAAAAGTTTGTCAAGTTCGGAA-
* * *
3423 GTTTGTCCATA-ATCCAAGAGATA
194 GTTCGTCCA-AGA-ACAAGAGAGA
* * * **
3446 ATA-AATTCTCACGTAAATAAGTTTTTAATTCAATGACCAAAAGTT-TATACCAAATGACAAACT
1 A-ACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACT
* * **
3509 ATTTAGACAAAATGATGTGATTTCCCAAT-CATGGAATGTTAAG-AAATCTGCTCGAAGGAATGG
65 ATTTAGACAAAATGATGCGATTTCCC-GTGCATGGAATGTTCGGAAAAT-TGCTCGAAGGAATGG
* * * **
3572 ATCGTCATGAATACTTTAAGGAACTGAAGTTATAGAAGAACTCGTCAAAGTTTGTCAAGTTTAGA
128 ATCGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGA
* * * * *
3637 AGCTCATCCAATATCCAAGAGAGG
193 AGTTCGTCCAAGA-ACAAGAGAGA
* * * **
3661 AACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGTTTACCAAATGACAAA-TA
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* ** * ** * ** * *
3725 GTTTAGAAAAAATGACACAATTTCCCAAGCATGAAATGTTTAGACAATTGCTCAAAGGAATGGAT
66 -TTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGAT
* ** * * * *
3790 CATCATGAATACTTTGTGGAACTGAAGTTATAAAACAACTCGTAAAAGTTTGCCAAGTTCGAAAG
130 CGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAG
*
3855 TTCGTCCAAGAACCAAGATAGA
195 TTCGTCCAAGAA-CAAGAGAGA
* * * * *
3877 AACAACTCTCACGTCAATAAGTTTTTCATTGAAAGACCAAAAGTAGTTTAGAAAATGACAAAGTA
1 AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * * * ** ** * *
3942 TTTAGACCAAATGAAGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTTTATGGAATGGATT
66 TTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATC
* * * ** * *
4007 GTCCTAAATACTTTAAGAAACCAAAGTTATT-GAAGAACTCGTAAAAGTTTGTCAAGTTTGGAAG
131 GTCATGAATACTTTAAGGAACTGAAGTT-TTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAG
* * *
4071 TTCATCTAAGAACAAGGAGAAA
195 TTCGTCCAAGAACAA-GAGAGA
* **
4093 AACAACTCTCGCGTAAAT-AGATTTTTAATTCAAAGATAAAAAGTTGTTTAGAAAATGACAAACT
1 AACAACTCTCACGTAAATAAG-TTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACT
4157 ATTTAGACAAAATGAT
65 ATTTAGACAAAATGAT
Statistics
Matches: 3297, Mismatches: 560, Indels: 190
0.81 0.14 0.05
Matches are distributed among these distances:
206 2 0.00
207 170 0.05
208 2 0.00
209 52 0.02
210 116 0.04
211 2 0.00
212 4 0.00
213 169 0.05
214 16 0.00
215 486 0.15
216 1887 0.57
217 205 0.06
218 2 0.00
219 2 0.00
220 178 0.05
221 4 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (215 bp):
AACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
TTTAGACAAAATGATGCGATTTCCCGTGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATC
GTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGT
TCGTCCAAGAACAAGAGAGA
Found at i:1258 original size:647 final size:648
Alignment explanation
Indices: 5--4172 Score: 4107
Period size: 647 Copynumber: 6.5 Consensus size: 648
1 GAGG
* * * * **
5 AACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGTTTACCAAATGACAAA-TA
1 AACAACTCTCACGTAAATAACTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * * * * *
69 GTTTAGAAAAAATGATACAATTTCCCAAGCATGAAATGTTTAGAAAATTGCTC-AAAGGAATGGA
66 -TTTAGACATAATGATACGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAA-GAATGGA
** * * * *
133 TCGTCATGAATACTTTGTGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGCCAAG-TTCGAA
129 TCGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGCAAAAGTTTGTCAAGTTTAG-A
* * * * * * * *
197 AGTTCATCCAAGAACCAAGATAGAAACAACTCTCATGTCAATAA-ATTTTTCATTGAAAGACCAA
193 AGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGA-TTTTAATTTAAAGACCAA
* *
261 AAGTAGTTTAGAAAATGACAAAATA-TT--ACCAAATGATGCGATTTCCCGAGCATGGAATGTTC
257 AAGTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC
* * * ** * * *
323 AAAAAATTGCTCTACGGAATGGATTATCCTGAATACTTTAAGAAACCG-AAGTTATTGAAGAACT
322 AGAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAA-CGAAAGTTATAGAAGAACT
** * *
387 CGTAAAAGTTTGT-CAAGTTTGGAAGTTCATCTAAGAA-CAAGGAGAAAAACAACTCTCGCGTAA
386 CGTAAAAGTTT-TCCAAGTTCAGAAGTTCATCCAAGAACCAA-GAGAAAAACAACTCTCACGTAA
* ** *
450 AT-AGATTTTTAATTCAAAGATAAAAAGTTGTTTAGAAAATGACAAACTATTTAGACAAAATGAT
449 ATAAG-TTTTTCATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACATAATGAT
* * * * * *
514 GCGATTTCCCGTGCATGGAATGTTCGGAGAATTGATCAAAGGGAAGGATCGTCATGAATACTTTA
513 GCGATTCCCCGTGCATGGAATGTTCGAAAAATTGCTCGAAGGGAAGGATCATCATGAATACTTTA
* *
579 AGGAACTGAAGTTTTAAAAGAACTCATGAAACTTTGTCAAGTTCGAAAGTTCGTCCAAGAACAAA
578 AGGAACTGAAGTTTTAAAAGAACTCGTAAAACTTTGTCAAGTTCGAAAGTTCGTCCAAGAACAAA
644 GAGAGA
643 GAGAGA
* * *
650 AACAACTATCACGTAAATAACTTTTTAATTTATAGACCAAAAGTTGTTTAGAAAATGACAAACTA
1 AACAACTCTCACGTAAATAACTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * * * *
715 TTTAGACATAATGATATGA-TTCCGCGTGCTTGGAATGTTCAAAAAATTGCTCGAAAGAAAGGAT
66 TTTAGACATAATGATACGATTTCC-CGAGCATGGAATGTTCAGAAAATTGCTCGAAAGAATGGAT
* * ** *
779 CGTCATGAATTCTTTAAGGAACTGAAGTTTTAAAAGAACTCGCAAAACTTCATCAAGTTCAGAAG
130 CGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGCAAAAGTTTGTCAAGTTTAGAAG
* * * *
844 TTCGTCCAAGAACAAAAAGAGAAACAATTCTCACGTAAATAAGATTTTAATTTAGAGATCATAAG
195 TTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATTTAAAGACCAAAAG
* * * * *
909 TTGTTTATAAAATGACAAACTATTTAGACCAAACGATGTGTTTTCCCGAGCATGGAATGTTCGGA
260 TTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAGA
* * * * * * * *
974 AAATTGTTTGAAGGAATGGATTGTCAGGAGTACTTTAAGGAACGAAATTTATAGATGAACTAGTA
325 AAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACGAAAGTTATAGAAGAACTCGTA
*
1039 AAA-TTTTCCAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAAAAATCAACTCTCACGTAAATAAG
390 AAAGTTTTCCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAAAAA-CAACTCTCACGTAAATAAG
* *
1103 -TTTTCATTCAAAGACTAAAAGTTGTTTAGAAAATGACAAACTATTTTGACATAATGATGCGATT
454 TTTTTCATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACATAATGATGCGATT
*
1167 CCCCGTG-ATTGGAATGTTCGAAAAATTGCTCGAAGGGAAGGATCATCATGAGTACTTTAAGGAA
519 CCCCGTGCA-TGGAATGTTCGAAAAATTGCTCGAAGGGAAGGATCATCATGAATACTTTAAGGAA
* * *
1231 CTGAAGTTTTAAAAGAACTCGTGAAACTTTGTCAAGTTCGGAAGTTCATCCAAGAACAAAGAGAG
583 CTGAAGTTTTAAAAGAACTCGTAAAACTTTGTCAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAG
1296 A
648 A
* *** * *
1297 AACAACTCTCACATAAATAACTTTTTAATTTGTAGACCAAAAGTTGTTTAGAAAATAAAAAACTA
1 AACAACTCTCACGTAAATAACTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * * *
1362 TTTAGACATAATGATACGATTCCCCGTGCTTGGAATGTTC-GAAAAATTGCTCG-AAGTAAAGGA
66 TTTAGACATAATGATACGATTTCCCGAGCATGGAATGTTCAG-AAAATTGCTCGAAAG-AATGGA
* * * * *
1425 TCGTCATGAATACTTTAAGGAATTGAAGTTTTAAAAGAACTC-CTGAAACTTCGTCAAGTTTGGA
129 TCGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGC-AAAAGTTTGTCAAGTTTAGA
* * ** *
1489 AGTTCGTCCAAGAACAATGAGAGAAACAACTCTCACGTAAATAACTTTTTAATTTATAGACCAAA
193 AGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATTTAAAGACCAAA
* * *
1554 AGTTGTTTAGAAAATGACAAACTATTTAGA-CATAATCATGCGA-TTCCCTGTGCTTGGAATGTT
258 AGTTGTTTAGAAAATGACAAACTATTTAGACCA-AATGATGCGATTTCCC-GAGCATGGAATGTT
** * * * * *
1617 TGGAAAATTGCTCGAAGTAAAGGATCGGCATGAATACTTTAAGGAAC-AGAAGTTTTAAAAGAAC
321 CAGAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACGA-AAGTTATAGAAGAAC
* * * ** * *
1681 TCGTGAAACTTCGT-CAAGTTTGGAAGTTCGTCCAAGAACAAAGA-AAGAAACAACTCTCACGTA
385 TCGTAAAAGTT-TTCCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAA-AAACAACTCTCACGTA
* * * * *
1744 AATAACTTCTTAATTTATAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACATAATGAT
448 AATAAGTTTTTCATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACATAATGAT
* * * * * * ***
1809 GAGATTCCCCGTGCTTGGATTGTTTGGAAAATTTCTCGAAATAAAGGATCGA-CATGAATACTTT
513 GCGATTCCCCGTGCATGGAATGTTCGAAAAATTGCTCGAAGGGAAGGATC-ATCATGAATACTTT
* * * * * * * * * * * *
1873 AATGAACCGAAGTTATAAAACAACTGGTAAAAAGTTTGTGACGTTCGAAAGTTTGTCCATGATCC
577 AAGGAACTGAAGTTTTAAAAGAACTCGT-AAAACTTTGTCAAGTTCGAAAGTTCGTCCAAGAACA
1938 AAGAG-GTA
641 AAGAGAG-A
* * * * ***
1946 ATA-AATTCTCACGTAAATAAGTTTTTAATTCAATGACCAAAAGTTGTATCCCAAATGACAAACT
1 A-ACAACTCTCACGTAAATAACTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACT
* ** * * * *
2010 ATTTAGACAAAATGATGTGATTTCCCAAGCAAGGAATGTTCAGAAAATTGCTTGAAGGAATGGAT
65 ATTTAGACATAATGATACGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAAGAATGGAT
* * * * * * *
2075 CGTCATGAATACCTTAAAGAACCGAAGTTATAGAAGAACTCGTC-ACAGTTTGTCAAATTTAGAA
130 CGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCG-CAAAAGTTTGTCAAGTTTAGAA
* * * * * * * **
2139 GTTCATCCAATATCCAAGAGAGGAACAATTCTCATGAAAATAAG-TTTTTCTTTCAAAGACCAAA
194 GTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATTT-AAAGACCAAA
** * * *
2203 AGTTG--T-G---A--A-AAA-TAGTTTAGAAAAAATGATGCGATTTCCCAAGCATGAAATCTTC
258 AGTTGTTTAGAAAATGACAAACTA-TTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC
* * * * * *
2258 GGAAAATTGCTCGAAAGAATGGATCGTCATGAATACCTTATGGAACTAAAGTTATAAAAGAACTC
322 AGAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACGAAAGTTATAGAAGAACTC
* * * * * *
2323 GTAAAAGTTTGCCAAGTTCAAAAGTTCATCCAATAACCAAGATAGAAACAACTCTCACGTCAATA
387 GTAAAAGTTTTCCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAAAAACAACTCTCACGTAAATA
* * * * *
2388 AGTTTTTCATTGAAAGACCAAAAGTAGTTTAGAAAATGACAAATTATTTAGACCA-AATTATACG
452 AGTTTTTCATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGA-CATAATGATGCG
* * * * * ** * * ** * *
2452 ATTTCTCGAGCAAGGAATGATAAAAAAATTGCTC-AATGGAATTGATTGTCCTGAATGC--T---
516 ATTCCCCGTGCATGGAATGTTCGAAAAATTGCTCGAAGGGAA-GGATCATCATGAATACTTTAAG
* * * * * * * * * *
2511 -AACCGTAGTTGTT-AAAGAAGTCGTAAAAGTTTGTCAACTTTGGAAGTTCATCTAAGAACCAAG
580 GAACTGAAGTT-TTAAAAGAACTCGTAAAACTTTGTCAAGTTCGAAAGTTCGTCCAAGAACAAAG
*
2574 AGAAA
644 AGAGA
* ** *
2579 AACAACTCTCGCGTAAATAGA-TTTTTAATTCAAAGATAAAAAGTTGTTTAGAAAATGATAAACT
1 AACAACTCTCACGTAAATA-ACTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACT
* * * *
2643 ATTTAGACA-AATGATGCGATTTCCCGCGCATGGAATGTTCGGAAAATTG-TTGAAAGGAATGGA
65 ATTTAGACATAATGATACGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAA-GAATGGA
* * **
2706 TCGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTTGCAAAACTTCATCAAGTTTAGAA
129 TCGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGCAAAAGTTTGTCAAGTTTAGAA
* * *
2771 GTTTGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGATCTTAATTTAGAGACCAAAA
194 GTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATTTAAAGACCAAAA
* * * *
2836 GTTGTTTAGAAAATGACAAACTATTTAGA-CAGAATGATACGATTCCCCGTGCTTGGAATGTTCA
259 GTTGTTTAGAAAATGACAAACTATTTAGACCA-AATGATGCGATTTCCCGAGCATGGAATGTTCA
* * * * *
2900 GAAAATTGTTTGAAGGAATGGATTGTCATGAATACTTTAAGGAACGAAAGTTATAGATGAACTGG
323 GAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACGAAAGTTATAGAAGAACTCG
* *
2965 TAAAAGTTTTCCAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAGAGAAACAACTCTTACGTAA
388 TAAAAGTTTTCCAAGTTCAGAAGTTCATCCAAGAACC-A-AGAGA-A-AAACAACTCTCACGTAA
* *
3030 ATAAGTTTTTCATTCAAAAACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACATAATGAAG
449 ATAAGTTTTTCATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACATAATGATG
* * * * *
3095 CGATTCCCCGTGCTTGGAATTTTTGAAAAATTGCTCGAAGGTAAGGATCGTCATGAATACTTTAA
514 CGATTCCCCGTGCATGGAATGTTCGAAAAATTGCTCGAAGGGAAGGATCATCATGAATACTTTAA
** * * *
3160 GGAGTTGAAGTTTTAAAAGAACTCGTGAAACTTCGTCAAGTTCGGAAGTTCGTCCAAGAACAAAG
579 GGAACTGAAGTTTTAAAAGAACTCGTAAAACTTTGTCAAGTTCGAAAGTTCGTCCAAGAACAAAG
3225 AGAGA
644 AGAGA
* * * * *
3230 AACAACTCTCATGTAAATAACTTTTTAATTTATAGACCAAAAGTTGTTTAGAAAAAGACAAACTC
1 AACAACTCTCACGTAAATAACTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * * * * ** *
3295 TTTAGACATAATGATGC-AATCCCCCATGCTTGGAATGTTTGGAAAATTGCTCG-AAGTAAAGGA
66 TTTAGACATAATGATACGATTTCCCGA-GCATGGAATGTTCAGAAAATTGCTCGAAAG-AATGGA
* * ** * * * * *
3358 TAGTCATGAATACTTTAATGAACCAAAGTTATAAAACAACT-GATAAAAGTTTGTGAAG-TTCGA
129 TCGTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCG-CAAAAGTTTGTCAAGTTTAGA
* * * * * * *
3421 ATGTTTGTCCATA-ATCCAAGAGATAATA-AATTCTCACGTAAATAAGTTTTTAATTCAATGACC
193 A-GTTCGTCCA-AGAACAAAGAGAGAA-ACAATTCTCACGTAAATAAGATTTTAATTTAAAGACC
* ** * * * *
3484 AAAAGTT-TATACCAAATGACAAACTATTTAGACAAAATGATGTGATTTCCCAATCATGGAATGT
255 AAAAGTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
*
3548 TAAG-AAATCTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTG-AAGTTATAGAAGA
320 TCAGAAAAT-TGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAAC-GAAAGTTATAGAAGA
* * * * * ** * *
3611 ACTCGTCAAAGTTTGT-CAAGTTTAGAAGCTCATCCAATATCCAAGAGAGGAACAATTCTCATGT
383 ACTCGTAAAAGTTT-TCCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAAAAACAACTCTCACGT
** * *
3675 AAATAAGTTTTTCATTCAAAGACCAAAAGTTGTTTACCAAATGACAAA-TAGTTTAGAAAAAATG
447 AAATAAGTTTTTCATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA-TTTAGACATAATG
** * * ** * * * *
3739 ACACAATTTCCCAAGCATGAAATGTT-TAGACAATTGCTC-AAAGGAATGGATCATCATGAATAC
511 ATGCGATTCCCCGTGCATGGAATGTTCGA-AAAATTGCTCGAAGGGAA-GGATCATCATGAATAC
** * * * *
3802 TTTGTGGAACTGAAGTTATAAAACAACTCGTAAAAGTTTGCCAAGTTCGAAAGTTCGTCCAAGAA
574 TTTAAGGAACTGAAGTTTTAAAAGAACTCGTAAAACTTTGTCAAGTTCGAAAGTTCGTCCAAGAA
* *
3867 CCAAGATAGA
639 CAAAGAGAGA
* * * * * *
3877 AACAACTCTCACGTCAATAAGTTTTTCATTGAAAGACCAAAAGTAGTTTAGAAAATGACAAAGTA
1 AACAACTCTCACGTAAATAACTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
* * ** **
3942 TTTAGACCA-AATGA-AGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTTTATGGAATGGA
66 TTTAGA-CATAATGATA-CGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAAGAATGGA
* * * * ** * * *
4005 TTGTCCTAAATACTTTAAGAAACCAAAGTTATT-GAAGAACTCGTAAAAGTTTGTCAAGTTTGGA
129 TCGTCATGAATACTTTAAGGAACTGAAGTT-TTAAAAGAACTCGCAAAAGTTTGTCAAGTTTAGA
* * * * * * * **
4069 AGTTCATCTAAGAACAAGGAGAAAAACAACTCTCGCGTAAAT-AGATTTTTAATTCAAAGATAAA
193 AGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGA-TTTTAATTTAAAGACCAA
*
4133 AAGTTGTTTAGAAAATGACAAACTATTTAGACAAAATGAT
257 AAGTTGTTTAGAAAATGACAAACTATTTAGACCAAATGAT
Statistics
Matches: 2888, Mismatches: 533, Indels: 201
0.80 0.15 0.06
Matches are distributed among these distances:
631 6 0.00
632 145 0.05
633 97 0.03
634 19 0.01
635 2 0.00
638 2 0.00
639 6 0.00
640 219 0.08
641 132 0.05
642 3 0.00
643 5 0.00
644 6 0.00
645 327 0.11
646 42 0.01
647 912 0.32
648 319 0.11
649 237 0.08
650 12 0.00
651 254 0.09
652 139 0.05
653 4 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (648 bp):
AACAACTCTCACGTAAATAACTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTA
TTTAGACATAATGATACGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAAGAATGGATC
GTCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAACTCGCAAAAGTTTGTCAAGTTTAGAAGT
TCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATTTAAAGACCAAAAGT
TGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAGAA
AATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACGAAAGTTATAGAAGAACTCGTAA
AAGTTTTCCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAAAAACAACTCTCACGTAAATAAGTT
TTTCATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACATAATGATGCGATTCC
CCGTGCATGGAATGTTCGAAAAATTGCTCGAAGGGAAGGATCATCATGAATACTTTAAGGAACTG
AAGTTTTAAAAGAACTCGTAAAACTTTGTCAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGA
Done.