Locus 5140

Sequence ID 3L_DroMel_CAF1
Location 14,130,054 – 14,130,163
Length 109
Max. P 0.842818
window8133

overview

Window 3

Location 14,130,054 – 14,130,163
Length 109
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 73.10
Mean single sequence MFE -21.40
Consensus MFE -11.68
Energy contribution -12.96
Covariance contribution 1.28
Combinations/Pair 1.26
Mean z-score -1.82
Structure conservation index 0.55
SVM decision value 0.76
SVM RNA-class probability 0.842818
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14130054 109 - 23771897
AAAUGAUACAUAACAAAGAUUAU--AUUUUUGAUGAAUUCUAGAAAUACCACU-UGGAAACUCCAAAGUGUGUUUCAUAUUUGCCAAAGCUCUUAGCUUUGUAGGUCCUAAG
....(((......(((((((...--))))))).......((((((((((.(((-(((.....)).)))))))))))........((((((.....))))))))))))..... ( -22.30)
>DroSec_CAF1 127843 101 - 1
AAAUGAUACACAA-------UAU--AUUUCUUGCACAUUCUAGAAAUACCACC-UGGAAACUCCAAAGUGUGUUUCAUAUUUGCCGAAGCUCUUAGCUUUGGAAGA-CUAAA
..((((.(((((.-------..(--((((((..........))))))).....-(((.....)))...))))).)))).....(((((((.....)))))))....-..... ( -24.50)
>DroSim_CAF1 131076 101 - 1
AAAUGAUACACAA-------UAU--AUUUCUUGCAAAUUCUAGAAAUACCACU-UGGAAACUCCAAAGUGUGUUUCAUAUUUGCCGAAGCUCUUAGCUAAGUAAGA-CUAAA
.............-------...--...((((((........(((((((.(((-(((.....)).)))))))))))...........(((.....)))..))))))-..... ( -20.80)
>DroEre_CAF1 127076 100 - 1
AAUUGAUACACAA-AACUAUUAUACAUAUUU------UGAAAGAAUUACCGCUUUGGAAAUUCCGAAGUGUGUUUCAUGUUUACCAAAGCUCUUAGCCUUACGAAG-C----
...(((.((((..-............((.((------(....))).))..(((((((.....))))))))))).))).((((......((.....))......)))-)---- ( -16.40)
>DroYak_CAF1 133296 110 - 1
AAAUAAUACAAAA-AACGAUUGUGCAUACUUGUAGUAUUAUAAAAGUACCUCUUUGGAAAUUCCGAAGUGUGUUUCACGUUUGCCCAAGUUCUUAGCUUCAUAAGG-CUGAG
............(-((((.....(((((((((..(((((.....)))))..)..(((.....)))))))))))....))))).........(((((((......))-))))) ( -23.00)
>consensus
AAAUGAUACACAA_AA__AUUAU__AUUUUUGGCAAAUUCUAGAAAUACCACU_UGGAAACUCCAAAGUGUGUUUCAUAUUUGCCAAAGCUCUUAGCUUUGUAAGA_CUAAA
..........................................(((((((.(((.(((.....))).))))))))))........((((((.....))))))........... (-11.68 = -12.96 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:50 2006