Locus 5401

Sequence ID 2R_DroMel_CAF1
Location 17,441,295 – 17,441,386
Length 91
Max. P 0.922012
window8616

overview

Window 6

Location 17,441,295 – 17,441,386
Length 91
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 79.45
Mean single sequence MFE -16.05
Consensus MFE -7.72
Energy contribution -8.32
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.40
Structure conservation index 0.48
SVM decision value 1.14
SVM RNA-class probability 0.922012
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17441295 91 + 20766785
AGCUUUGGG----CAUUUGAAUACAUUUGCCACACACUAGGCGCUCUCCGUUCUCCUUCUCUCCAUUUCGUCUCUGCCCACUU---UUCUAUAUUUUU
.....((((----((..((((.......(((........)))((.....))...............))))....))))))...---............ ( -13.60)
>DroSec_CAF1 156813 92 + 1
AGCUUUGGGCCAGCAUUUGAAAUCAUUUGCCACACACAAGGCGCUCUCCGUUCUCCUUCU---CAUUUCGGCUCUGCCCACUU---UUCUAUAUUUUU
.((...(((((.(((..((....))..))).......((((.((.....))...))))..---......))))).))......---............ ( -16.40)
>DroSim_CAF1 161034 92 + 1
AGCUUUGGGCCAGCAUUUGAAUUCAUUUGCCACACACUAGGCGCUCUCGGUUCUCCUUUU---UAUUUUGGCUCUGCUCACUU---UUCUAUAUUUUU
(((...((((((((...((....))...(((........)))))....((....))....---.....)))))).))).....---............ ( -18.20)
>DroEre_CAF1 156873 84 + 1
AACUUUGGGCCAGCAUUUGAAUUCAUUUGCUACACACCAGACC-----------CCGCCC---CAUUCAGGCUCUCCCCACUUUCUUUCUAUAUUUUC
.....((((..((((..((....))..))))............-----------..(((.---......)))....)))).................. ( -14.40)
>DroYak_CAF1 141169 92 + 1
AACUUUGGGCCAGCAUUUGAAUUCAUUUGCUACACACUAGGCCGCCUCCAUUCUCCGCCU---CAUUUCGGCUCUCCCCCGUU---UUCUAUAUUUUU
......(((((((((..((....))..)))).......((((..............))))---......))))).........---............ ( -17.64)
>consensus
AGCUUUGGGCCAGCAUUUGAAUUCAUUUGCCACACACUAGGCGCUCUCCGUUCUCCUUCU___CAUUUCGGCUCUGCCCACUU___UUCUAUAUUUUU
......(((((.(((..((....))..)))..(......).............................)))))........................ ( -7.72 =  -8.32 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:53 2006