Locus 2040

Sequence ID X_DroMel_CAF1
Location 5,602,860 – 5,602,959
Length 99
Max. P 0.601315
window3320

overview

Window 0

Location 5,602,860 – 5,602,959
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.09
Mean single sequence MFE -17.42
Consensus MFE -2.34
Energy contribution -2.14
Covariance contribution -0.20
Combinations/Pair 1.22
Mean z-score -1.48
Structure conservation index 0.13
SVM decision value 0.14
SVM RNA-class probability 0.601315
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5602860 99 + 22224390
ACGUAUUGAGGCUUCUAAUCGCUUUUAUUAA-----UAUUAACUCUACUU----------UCAGG--UUGUU----CACUUCUUAUUGCGUGAAAGUUCUUAACUUAUCUCGUCUUUAAU
(((...((((((........)).........-----..........((((----------(((.(--(.((.----........)).)).)))))))......))))...)))....... ( -12.90)
>DroSec_CAF1 4487 99 + 1
ACAUAUGUAGGUUGCUAAUUGCUUCUAUUAA-----UUUUAACUCCACUU----------UCAGG--UUGUU----CACUUCUUACAGCGUGAAAGUUCUUAACUUAUCUUGUCUUUAAU
(((...(((((((((.....)).........-----..........((((----------(((.(--((((.----........))))).)))))))....)))))))..)))....... ( -19.50)
>DroSim_CAF1 5357 99 + 1
ACAUAUGUAGGUUGCUAAUUGCUUCUAUUAA-----UCUUAACUCCACUU----------UCAGG--UUGUU----CACUUCUUACAGCGUGAAAGUUCUUAACUUAUCUUGUCUUUAAU
(((...(((((((((.....)).........-----..........((((----------(((.(--((((.----........))))).)))))))....)))))))..)))....... ( -19.50)
>DroEre_CAF1 5048 110 + 1
CCAU----CGGAUUUUAAUUACUUUUACUAACAUUGUCUUAACUUCACUUUAGCCAAAGUUCAGG--UAGUU----CAUUACUUACAGCGUGAAAGUUCUUAACUUAUCUUAUCCUGGAU
(((.----.((((.((((..((((((((..............((..(((((....)))))..))(--((((.----....)).)))...))))))))..))))........))))))).. ( -15.70)
>DroYak_CAF1 5091 111 + 1
ACAU----AGGUUUUUAAUUGCUUUUAUUAA-----UCUCAACUUCACGUUAGCCAAAGUUUUGACUUUGUUUUAACAGUUCUUACAGCGUGAGAGUUCUUAACUUAUCACGUCGUUAAU
....----(((((..(((......)))..))-----))).........(((((.((((((....))))))..))))).......((.((((((((((.....)))).)))))).)).... ( -19.50)
>consensus
ACAUAU__AGGUUUCUAAUUGCUUUUAUUAA_____UCUUAACUCCACUU__________UCAGG__UUGUU____CACUUCUUACAGCGUGAAAGUUCUUAACUUAUCUUGUCUUUAAU
.......................................................................................(((.((((((.....)))).)).)))....... ( -2.34 =  -2.14 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:49 2006