Locus 6979

Sequence ID X_DroMel_CAF1
Location 17,479,115 – 17,479,222
Length 107
Max. P 0.829154
window11400

overview

Window 0

Location 17,479,115 – 17,479,222
Length 107
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 95.25
Mean single sequence MFE -27.76
Consensus MFE -22.26
Energy contribution -22.26
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.80
SVM decision value 0.71
SVM RNA-class probability 0.829154
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17479115 107 + 22224390
AAA-----AAAACCGGGAGGAGCGGGUAGAAACAUUCAGGUGGUGGAGCGA-AUGAAAGUUGAUUCGAUUGAUUAAGAUCGCCUGGAUAGAUCUGGUGAGUUAUCCUUGCAGA
...-----......(.(((((((.(.((((...(((((((((((.((.(((-.((((......)))).))).))...)))))))))))...)))).)..))..))))).)... ( -27.70)
>DroSec_CAF1 9174 107 + 1
AAA-----AAAACCGGGAGGAGCGGGUAGAAACAUUCAGGUGGUGGAGCGA-AUGAAAGUUGAUUCGAUUGAUUAAGAUCGCCUGGAUAGAUCUGGUGAGUUAUCCUUGCAGA
...-----......(.(((((((.(.((((...(((((((((((.((.(((-.((((......)))).))).))...)))))))))))...)))).)..))..))))).)... ( -27.70)
>DroSim_CAF1 9522 107 + 1
AAA-----AAAACCGGGAGGAGCGGGUAGAAACAUUCAGGUGGUGGAGCGA-AUGAAAGUUGAUUCGAUUGAUUAAGAUCGCCUGGAUAGAUCUGGUGAGUUAUCCUUGCAGA
...-----......(.(((((((.(.((((...(((((((((((.((.(((-.((((......)))).))).))...)))))))))))...)))).)..))..))))).)... ( -27.70)
>DroEre_CAF1 8809 108 + 1
AAA-----AAAACCGGGAGGAGCGGGUAGAAACAUUCAAUUGGUGGAGCGACAUGAACGUUGAUUCGAUUGAUUAAGAUCGCCUGGAUAGAUCUGGUGAGUUAUCCUUGCAGA
...-----....((....)).((((((((........(((..((.(((((((......)))).))).))..)))....(((((.(((....)))))))).))))))..))... ( -27.00)
>DroYak_CAF1 9065 112 + 1
AAAAAAAAAAAACCGGAAGGAUCGGGUAGAAACAUUCAGGUGGUGGAGCGA-AUGAAAGUUGAUUCGAUUGAUUAAGAUCGCACGGAUAGAUCUGGUGAGUUAUCCUUGCAGA
............((....))(((((((...(((.((((..((......)).-.)))).))).))))))).(((....)))(((.((((((.((....)).)))))).)))... ( -28.70)
>consensus
AAA_____AAAACCGGGAGGAGCGGGUAGAAACAUUCAGGUGGUGGAGCGA_AUGAAAGUUGAUUCGAUUGAUUAAGAUCGCCUGGAUAGAUCUGGUGAGUUAUCCUUGCAGA
............((....))...((((...(((.((((..((......))...)))).))).))))((((......))))((..((((((.((....)).))))))..))... (-22.26 = -22.26 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:13 2006