Locus 4251

Sequence ID X_DroMel_CAF1
Location 11,170,713 – 11,170,815
Length 102
Max. P 0.936267
window6985

overview

Window 5

Location 11,170,713 – 11,170,815
Length 102
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 81.24
Mean single sequence MFE -20.80
Consensus MFE -18.10
Energy contribution -18.98
Covariance contribution 0.87
Combinations/Pair 1.13
Mean z-score -1.93
Structure conservation index 0.87
SVM decision value 1.25
SVM RNA-class probability 0.936267
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11170713 102 + 22224390
AGCACAGGCGCAGGAGUAAGUAAAAAUUAACAUAAAAAC--AAAAACCAACAACAAAGCGAGUAACAAUUUGUCGAAGUGAGUGCGCAAAAGUGCUGUGCUUGU----
...(((((((((...........................--.........((.....((((((....)))))).....))...((((....)))))))))))))---- ( -19.40)
>DroSec_CAF1 5324 108 + 1
AGCACAGGCGCAGGAGUAAGUAAAAAUUACAAAAAAAAAAAAAAAACCAACAACAAAGCGAGUAAUAAUUUGUCGAAGUGAGUGCGCAAAAGUGCUGUGAUUGUGUGC
(((((..(((((...((((.......)))).......................((...(((.(((....))))))...))..)))))....)))))............ ( -19.80)
>DroSim_CAF1 833 102 + 1
AACACAGGCGCAGGAGUAAGUAAAAAUUACCAAAAAAAUAA------CAACAACAAAGCGAGUAAUAAUUUGUCGAAGUGAGUGCGCAUAAGUGCUGUGAUUGUGUGC
.((((((.((((.(.((((.......)))))..........------......((...(((.(((....))))))...))...((((....)))))))).)))))).. ( -18.20)
>DroYak_CAF1 832 97 + 1
AGCACAGGCGCAGGAGUAAGUAAAAAAAUU-AAAAACAC---GAAAACA-------UACGAGUAACAAUAUGUUGAAGUGAGUGCGCAAAAGUGCUGUGUUUGUGUGC
.(((((((((((..................-.....(((---...((((-------((..........))))))...)))...((((....))))))))))))))).. ( -25.80)
>consensus
AGCACAGGCGCAGGAGUAAGUAAAAAUUACCAAAAAAAC___AAAACCAACAACAAAGCGAGUAACAAUUUGUCGAAGUGAGUGCGCAAAAGUGCUGUGAUUGUGUGC
.((((((((((((.(.(........................................((((((....))))))....(((....)))...).).)))))))))))).. (-18.10 = -18.98 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:16 2006