Locus 5143

Sequence ID X_DroMel_CAF1
Location 13,419,027 – 13,419,122
Length 95
Max. P 0.668139
window8353

overview

Window 3

Location 13,419,027 – 13,419,122
Length 95
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 81.98
Mean single sequence MFE -34.54
Consensus MFE -18.66
Energy contribution -18.90
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -2.16
Structure conservation index 0.54
SVM decision value 0.28
SVM RNA-class probability 0.668139
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13419027 95 - 22224390
GCACCCCGACCAAGUUAAUCAUCGUUGAUUGCGAUGGGUGGAUGGCG----UGGUGGCCAAAUGGCAUGGUGGCCAGGUGGGCAUGUGAGCAUCUGACU
.(((.(((.(((......(((((((.....))))))).))).))).)----))(((.(((..((((......))))..))).)))((.((...)).)). ( -33.90)
>DroSec_CAF1 14667 91 - 1
GCACCCCGACCAAGUUAAUCAUCGUUGAUUGAGAUGGGU----GGCG----UGGUGGCCAGAUGGCAUGGUGUCCAGGUGGGCAUGUGAGCAUCUGACU
.((((.((.(((..(((((((....)))))))..)))..----..))----.))))..((((((.((((.(((((....)))))))))..))))))... ( -34.30)
>DroSim_CAF1 13962 91 - 1
GCACCCCGACCAAGUUAAUCAUCGUUGAUUGAGAUGGGU----GGCG----UGGUGGCCAGAUGGCACGGUGUCCAGGUGGGCAUGUGAGCAUCUGACU
.((((.((.(((..(((((((....)))))))..)))..----..))----.))))..((((((.((((.(((((....)))))))))..))))))... ( -36.80)
>DroEre_CAF1 9613 75 - 1
GCACCCCGACCAAGUUAAUCAUAGUUGAUUGAGAUGGGU----GGC----CAGGUGGCCA----------------GGUGGGCAUGUGAGCAUCUGGCU
.(((((((.(((..(((((((....)))))))..))).)----)).----..))))((((----------------((((..(....)..)))))))). ( -30.60)
>DroYak_CAF1 24019 88 - 1
GCUCCCCGACCAAGUUAAUCAUCGUUGAUUGAGAUGGGU----GGCGCCACACCUGGCCACCUG-------CUCCUGGUGGCCAUGUGAGCAUCUGACU
((..((((.(..(((((((....)))))))..).)))).----.))((((((..((((((((..-------.....)))))))))))).))........ ( -37.10)
>consensus
GCACCCCGACCAAGUUAAUCAUCGUUGAUUGAGAUGGGU____GGCG____UGGUGGCCAGAUGGCA_GGUGUCCAGGUGGGCAUGUGAGCAUCUGACU
((.((((..(((..(((((((....)))))))..)))......(((..........))).................)).))))..((.((...)).)). (-18.66 = -18.90 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:59 2006