Locus 2714

Sequence ID 2R_DroMel_CAF1
Location 9,520,891 – 9,521,006
Length 115
Max. P 0.533341
window4491

overview

Window 1

Location 9,520,891 – 9,521,006
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.36
Mean single sequence MFE -24.05
Consensus MFE -18.19
Energy contribution -18.67
Covariance contribution 0.48
Combinations/Pair 1.06
Mean z-score -1.57
Structure conservation index 0.76
SVM decision value -0.00
SVM RNA-class probability 0.533341
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9520891 115 - 20766785
UUUUCCAGCUAAAUUCUGAUUCUA-----UAUCAUUUCGAAAAGAAGAUAACACAUUGUGAAUUGCAGGAUUUUAGUUCACACGCAGGGCGAAACCGCAAGCAUUCGCCAUGAUAUAUAA
.....(((.......)))....((-----(((((((((.....)))).........(((((((((........))))))))).....((((((..(....)..)))))).)))))))... ( -24.90)
>DroSec_CAF1 17527 113 - 1
UUUCCCAGCUAAAUUCUGAUUCUA-----UAUCAUUCCGAAAAGAAGAUAACACAUU--GAAUCGCAGGAUUUAAGUUCACACGCAGGGCGAAACCGCAAUCAUUCGCCAUGAUAUAUAA
......((((((((((((((((..-----((((.(((......))))))).......--)))))..))))))).))))......((.((((((..........)))))).))........ ( -19.50)
>DroSim_CAF1 17908 113 - 1
UUUCCCAGCUAAAUUCUGAUUCUA-----UAUUAUUUCGAAAAGAAGAUAACACAUU--GAAUCACAGGAUUUAAGUUCACACGCAGAGCGAAACCGCAAGCAUUCGCACUGAUAUAUAA
......((((((((((((((((..-----..(((((((.....).))))))......--)))))..))))))).))))......(((.(((((..(....)..))))).)))........ ( -22.10)
>DroEre_CAF1 17348 113 - 1
UUGCUCAGCUAAAUUCUGAUUCAA-----UAUCAUUUCGAAAAGAAGAUAACACAUU--GAAUUGCAGGAUUUCAGUUCACACGCAGGGCGAAACCGCAAGCAUUUGCCAUGAUAUAUAA
((((..((((((((((((((((((-----(......((........))......)))--))))..)))))))).)))).....))))((((((..(....)..))))))........... ( -24.50)
>DroYak_CAF1 17301 118 - 1
UUUCUCAGCUAAAUUGUGAUUCUAUAGUAUAUCAUUUCGAAAAGAAGAUAACACAUU--GAAUCGCAGGAUUUUAGUUCACACGCAGGGCGAAACCGCAAGCAUUCGCCAUGAUGUAUAA
......((((((((((((((((.......((((..(((.....))))))).......--)))))))))...)))))))...(((((.((((((..(....)..)))))).)).))).... ( -29.24)
>consensus
UUUCCCAGCUAAAUUCUGAUUCUA_____UAUCAUUUCGAAAAGAAGAUAACACAUU__GAAUCGCAGGAUUUAAGUUCACACGCAGGGCGAAACCGCAAGCAUUCGCCAUGAUAUAUAA
......((((((((((((((((.......((((..(((.....))))))).........))))..)))))))).))))......((.((((((..(....)..)))))).))........ (-18.19 = -18.67 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:29 2006