Locus 388

Sequence ID 3L_DroMel_CAF1
Location 1,124,110 – 1,124,219
Length 109
Max. P 0.986746
window571

overview

Window 1

Location 1,124,110 – 1,124,219
Length 109
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 78.04
Mean single sequence MFE -33.08
Consensus MFE -19.77
Energy contribution -19.71
Covariance contribution -0.06
Combinations/Pair 1.38
Mean z-score -2.58
Structure conservation index 0.60
SVM decision value 2.05
SVM RNA-class probability 0.986746
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1124110 109 + 23771897
UUUUCACCCACGCAGUUCGGACAAUACAUAUGCACAUAUACACACAUAUGCGUAUCUGACAGUCGAGUGUGUGUGCCAUGUGGUGGUAUGGUAUUGUGUAAUCUGUGUG
........(((((((...(.(((((((.(((((.(((((.(((((((((.((...........)).)))))))))..)))))...)))))))))))).)...))))))) ( -38.10)
>DroSec_CAF1 17634 102 + 1
U--UCACCCACGCAGUUCGGACAAUACAUAUGCAUACACAUAC-UAUAUGCGUAUCUGACAGUCGAGUGUGUGUGCCGUGUG---CGCUGGUAUUGUGU-AUCUGUGUG
.--.....(((((((...(.(((((((...(((((((.(((((-.((((.((...........)).)))))))))..)))))---))...))))))).)-..))))))) ( -33.80)
>DroSim_CAF1 14211 102 + 1
U--UCACCCACGCAGUUCGGACAAUACAUAUGCAUACACAUAC-UAUAUGCGUAUCUGACAGUCGAGUGUGUGUGCCGUGUG---CGAUGGUAUUGUGU-AUCUGUGUG
.--.....(((((((...(.(((((((...(((((((.(((((-.((((.((...........)).)))))))))..)))))---))...))))))).)-..))))))) ( -33.80)
>DroEre_CAF1 15374 82 + 1
U--UCACCCACGCAGCCCAACCAAUACACAUACAUACGCAU------------AUCUGACAGUCGAGUGUGCGU---GGGUG---CGUUGGUAUUGUGU-AUC------
.--......((((((....(((((..(((.....(((((((------------(..((.....))..)))))))---).)))---..))))).))))))-...------ ( -26.60)
>consensus
U__UCACCCACGCAGUUCGGACAAUACAUAUGCAUACACAUAC_UAUAUGCGUAUCUGACAGUCGAGUGUGUGUGCCGUGUG___CGAUGGUAUUGUGU_AUCUGUGUG
.........(((((((((((......(((((((((((((((.........................))))))))).)))))).....)))).))))))).......... (-19.77 = -19.71 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:41 2006