Locus 1008

Sequence ID X_DroMel_CAF1
Location 2,917,300 – 2,917,403
Length 103
Max. P 0.570325
window1631

overview

Window 1

Location 2,917,300 – 2,917,403
Length 103
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 70.03
Mean single sequence MFE -20.57
Consensus MFE -9.29
Energy contribution -8.93
Covariance contribution -0.35
Combinations/Pair 1.42
Mean z-score -1.62
Structure conservation index 0.45
SVM decision value 0.07
SVM RNA-class probability 0.570325
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2917300 103 + 22224390
ACUUAAAUGCUCAUUAGAGUGCAGUGUGGGAGA--ACGGAAAUGC--CCCCCCU----CUAAAGACCCUCUUACCAUCCAAAAAUAUCUGAAUCAGAAUCUCCCACUUCCC-
........((((....)))).....((((((((--..(((.....--......(----(....))...........))).......((((...)))).)))))))).....- ( -21.25)
>DroSec_CAF1 303367 88 + 1
ACUUAAAUGCUCAUUAGAGUGCAGUGUGGGGGU--ACGGAACUGC--CCC-------------------CUUACCAUCCAAAAAUAUCUGAAUCAGAAUCUCCCACCUCCC-
........((((....))))..((.((((((((--(.((......--..)-------------------).))))...........((((...))))....)))))))...- ( -20.60)
>DroSim_CAF1 272938 88 + 1
ACUUAAAUGCUCAUUAGAGUGCAGUGUGGGGGA--ACGGAAAUGC--CCC-------------------CUUACCAUCCAAAAAUAUCUGAAUCAGAAUCUCCCACCUCCC-
........((((....))))..((.((((((((--..(((.....--...-------------------.......))).......((((...)))).))))))))))...- ( -20.26)
>DroEre_CAF1 327922 103 + 1
ACUUAAAUGCUCAUUAGAGUGCAGUGUGGGGGA--ACGGAAAGGC--UCCCCUU----CCAAAUACCC-CUUACCAUCCAAAAAUAUCUGAAUCAGAAACCCCCUUCUCCCC
........((((....)))).......(((((.--..((((.((.--...))))----))........-.................((((...))))..)))))........ ( -21.50)
>DroYak_CAF1 312346 100 + 1
ACUUAAAUGCUCAUUAGAAAGCAGUGUGGGGGA--ACGGAAAUGC--UCCCCUU-----UAAACACCC-CGUGCCAUCCAAAAAUAUCUGAAUCAGAA-CCUCCUUCCCC-A
.......((((........)))).....(((((--(.(((.....--.......-----....(((..-.))).............((((...)))).-..)))))))))-. ( -18.50)
>DroAna_CAF1 477220 99 + 1
ACUUAAGCGCUCAUUAAAUUGAAGUGCCAGGAAGGCCAAAAAGGGGGUGUAUUGCAAAACAAAUCCCC---------CCCAAAAAAUCUGCA---AAAUACUUAAGCCCCC-
.(((..(((((((......)).)))))....)))........((((((((((((((............---------...........))))---..))))....))))))- ( -21.30)
>consensus
ACUUAAAUGCUCAUUAGAGUGCAGUGUGGGGGA__ACGGAAAUGC__CCCCCUU______AAA_ACCC_CUUACCAUCCAAAAAUAUCUGAAUCAGAAUCCCCCACCUCCC_
......((((((((....))).)))))(((((.....((.........))....................................((((...))))..)))))........ ( -9.29 =  -8.93 +  -0.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:14 2006