Locus 4617

Sequence ID 2L_DroMel_CAF1
Location 13,208,518 – 13,208,611
Length 93
Max. P 0.929778
window7291

overview

Window 1

Location 13,208,518 – 13,208,611
Length 93
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 64.59
Mean single sequence MFE -20.11
Consensus MFE -14.34
Energy contribution -13.41
Covariance contribution -0.94
Combinations/Pair 1.40
Mean z-score -1.20
Structure conservation index 0.71
SVM decision value 1.20
SVM RNA-class probability 0.929778
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13208518 93 + 22407834
GUGGCAGUUUAUUAAAAAG------------GGAAUGCAC--------AC---ACACUUACCUUAUGUACAUCUUGCCUUAACCUUUAAUAAGCUGCCAGUUGUCUUGUAAAGCAC
.((((((((((((((((((------------(.((((.((--------(.---............))).)))..).))))....)))))))))))))))................. ( -22.52)
>DroSim_CAF1 15389 101 + 1
GUGGCAGUUUAUUGAAAAG------------GGAAUGCAAUUUUAAAUCC---ACGUCAGACUUUUUUACACUUUACCUUGACCUUUAAUGAGCUGCCAGAUGUCUUGUAACGCAC
.(((((((((((((((...------------(((.............)))---..(((((..................))))).)))))))))))))))................. ( -22.59)
>DroEre_CAF1 19795 80 + 1
GUGGCAGUUUAUUGAAAAG------------GGAAUCC------------------------AUAUGUAACCUUUGCCUUGAUCUUUAAUAAACUGUUAGUUGUCUUAUAACGCAC
.((((((((((((((((((------------(.((...------------------------...........)).))))....)))))))))))))))(((((...))))).... ( -18.24)
>DroYak_CAF1 15886 108 + 1
UUGGCGGUUUAUAAAAAAUAUUUUGAAAUUUGAAAUCUAC--------AUACGACACAUACGAUUUGUAUACGUUGCCGUGACCUUUAAUUAACCGCUAGUUGUCUUGUAACGCAC
.((((((((..((((....((((..(...)..))))...(--------((.((((..((((.....))))..))))..)))...))))...))))))))((((.....)))).... ( -17.10)
>consensus
GUGGCAGUUUAUUAAAAAG____________GGAAUCCAC________AC___ACAC_UACCAUAUGUACACUUUGCCUUGACCUUUAAUAAACUGCCAGUUGUCUUGUAACGCAC
.(((((((((((((((....................................................................)))))))))))))))................. (-14.34 = -13.41 +  -0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:42 2006