Locus 1968

Sequence ID 3R_DroMel_CAF1
Location 5,555,075 – 5,555,173
Length 98
Max. P 0.565282
window3229

overview

Window 9

Location 5,555,075 – 5,555,173
Length 98
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 80.47
Mean single sequence MFE -23.32
Consensus MFE -14.36
Energy contribution -15.03
Covariance contribution 0.67
Combinations/Pair 1.30
Mean z-score -1.59
Structure conservation index 0.62
SVM decision value 0.06
SVM RNA-class probability 0.565282
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5555075 98 - 27905053
AAUUUCAGUUUUAAAAACAUGCAUCGGAUACAUGACGACGAGUAUUCCGAGGAUGCCAAGGAAUCGGACUUUAAGAGUUCGAUUCAGA---AGGAGAUAUC
.(((((..(((......(((.(.((((((((.((....)).))).)))))).))).....(((((((((((...))))))))))))))---..)))))... ( -26.90)
>DroSec_CAF1 3315 95 - 1
---UUCAGUUUUAAAAACAUGCAUCGGAUACAUGACGACGAGUAUUCCGACGAUGCCAAGGAAUCGGACUUCAAGGGUUCGAUUCAGA---AGGAGAUAUC
---....(((((........(((((((((((.((....)).)))))....))))))....((((((((((.....))))))))))...---..)))))... ( -23.90)
>DroSim_CAF1 3778 98 - 1
AAUUACAGUUUUAAAAAUAUGCAUCGGAUACAUGACGACGAGUAUUCCGAUGAUGCGAAGGAAUCGGACUUCAAGGGUUCGAUUCAAA---AGGAGAUAUC
.......(((((.........((((((((((.((....)).))).)))))))........((((((((((.....))))))))))...---..)))))... ( -25.70)
>DroEre_CAF1 3860 98 - 1
AAUUUCAGUCUCGAAAACAUGCAUCGGAUACACGACGACGAGUAUUCUGAGGAUGCCAAGGAAUCUGACUUCAAGGGCUCAAUUCAGA---AGGAGAUAUC
.......(((((....((.(((.(((......))).).)).)).(((((((...(((...(((......)))...)))....))))))---).)))))... ( -23.80)
>DroWil_CAF1 8386 101 - 1
UCUUACAGUAUCUUAACAAUGAUUCGAAUUCAGGAUGACGAGUAUUCUGAAGACAUAAAGGAAUCAGAUCCUGAAGAAACAACUCAUCAAAAAGAAUUAGC
((((.(((.((((.......(((((...(((((((((.....)))))))))..(.....)))))))))).)))))))........................ ( -17.21)
>DroYak_CAF1 4017 98 - 1
AAUUUCAGUCUUAAAAACAUGCAUCGGAUACAUGACGACGAGUAUUCUGAGGAUGCCAAGGAAUCGGACUACAAGGGUUCAAUUCAGA---AGGAGAUAUC
.(((((..(((.........(((((((((((.((....)).))))))....)))))....((((.(((((.....))))).)))))))---..)))))... ( -22.40)
>consensus
AAUUUCAGUUUUAAAAACAUGCAUCGGAUACAUGACGACGAGUAUUCCGAGGAUGCCAAGGAAUCGGACUUCAAGGGUUCAAUUCAGA___AGGAGAUAUC
.......(((((........(((((((((((.((....)).))))))....)))))....((((.(((((.....))))).))))........)))))... (-14.36 = -15.03 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:05 2006