Locus 1342

Sequence ID X_DroMel_CAF1
Location 4,029,529 – 4,029,625
Length 96
Max. P 0.596241
window2142

overview

Window 2

Location 4,029,529 – 4,029,625
Length 96
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 80.09
Mean single sequence MFE -17.36
Consensus MFE -14.10
Energy contribution -13.22
Covariance contribution -0.88
Combinations/Pair 1.25
Mean z-score -1.38
Structure conservation index 0.81
SVM decision value 0.13
SVM RNA-class probability 0.596241
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4029529 96 + 22224390
AAUUGAAGAACAGUGACCGCAAAAUCCAAAUGCCAAAAUUUGACUAAUCGGUCAAAGUUGAAAAUGGACAUGA-GAUCGGAUUCCAAGUCCGAAGCA
........(((..((((((.......(((((......)))))......))))))..))).....(((((.((.-((......)))).)))))..... ( -21.52)
>DroSec_CAF1 43297 94 + 1
AAUUGAAGGACAGUGACCGCAAAAUGCAAAUGCCAAAAUUUGACCGAUUA--CAAAGUUGGAAAUGGACAUGA-GAUCGGAUUACCAGUCUGAAGCA
.......((((.(((((((....((((((((......))))).((((((.--...)))))).......)))..-...))).))))..))))...... ( -17.50)
>DroSim_CAF1 39520 94 + 1
AAUUGAAGGACAGUGACCGCAAAAUGCAAAUGCCAAAAUUUGACCGAUUA--CAAAGUUGGAAAUGGACAUGA-GAUCGGAUUACCAGUCUGAAGCA
.......((((.(((((((....((((((((......))))).((((((.--...)))))).......)))..-...))).))))..))))...... ( -17.50)
>DroEre_CAF1 43060 77 + 1
------------------GCAAAAUGCAAAUGCCAAAUUUUGGCCGAUUA--CAAAGUUGAAAAUGGACAUGAGGAUCGGAUUAACAGUCUGAAGCA
------------------......(((..(((((((((((((........--))))))).....))).))).....((((((.....)))))).))) ( -15.20)
>DroYak_CAF1 41762 76 + 1
------------------GCAAAAUGCAAAUGCCAAAUUUUAACCGAUUA--CAAAGUUGAAAAUGGACAUGA-AAUCAGAUUACCAGUCUGAAGCA
------------------......(((..((((((..(((((((......--....))))))).))).)))..-..((((((.....)))))).))) ( -15.10)
>consensus
AAUUGAAG_ACAGUGACCGCAAAAUGCAAAUGCCAAAAUUUGACCGAUUA__CAAAGUUGAAAAUGGACAUGA_GAUCGGAUUACCAGUCUGAAGCA
..................((.........((((((...((((((............))))))..))).))).....((((((.....)))))).)). (-14.10 = -13.22 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:59 2006