Locus 4103

Sequence ID X_DroMel_CAF1
Location 10,831,603 – 10,831,722
Length 119
Max. P 0.707127
window6743

overview

Window 3

Location 10,831,603 – 10,831,722
Length 119
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 79.55
Mean single sequence MFE -36.10
Consensus MFE -29.67
Energy contribution -31.07
Covariance contribution 1.40
Combinations/Pair 1.15
Mean z-score -1.33
Structure conservation index 0.82
SVM decision value 0.37
SVM RNA-class probability 0.707127
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10831603 119 - 22224390
GGCAUCGGCGACAUCGCAGUGACAAGUACUCAAGUCGGGUGCAGCUGCUGCGACUCGAGGAUAUUUGUGUCCUUGCUGUUGAAUUCUGAAUUCUCGUUUAAAUUCGACAUAUUGCUUUA
((((..(((((..(((((((..(..((((((.....)))))).)..))))))).))(((((((....))))))))))((((((((.(((((....)))))))))))))....))))... ( -39.20)
>DroSim_CAF1 37674 119 - 1
GGCAUCGGCGACAUCGCAGUGACAAGUACUCAAGUUGGGUGCAGCUGCUGCGACUCGAGGAUAUUUGUGUCCUUGCCGUAGAAUUCUGAAUUCUCGUUUAAAUUCGGCACUUUGCUUUA
((((....(((..(((((((..(..((((((.....)))))).)..))))))).)))((((((....))))))))))(((((...(((((((........)))))))...))))).... ( -39.10)
>DroEre_CAF1 54728 98 - 1
GGCAUCGGCGACAUCGCAGUGACAAGUGCUCAAGUCGGUUGCAGCUGCUGCGAUUCGGGGAUAUUUGUGUCC-UGCCGUGGAGUUU--------------------GCACUUUAAUUUG
(((.....(((.(((((((((((..........)))(((....))))))))))))))((((((....)))))-)))).((((((..--------------------..))))))..... ( -30.00)
>consensus
GGCAUCGGCGACAUCGCAGUGACAAGUACUCAAGUCGGGUGCAGCUGCUGCGACUCGAGGAUAUUUGUGUCCUUGCCGUAGAAUUCUGAAUUCUCGUUUAAAUUCGGCACUUUGCUUUA
((((....(((..(((((((..(..((((((.....)))))).)..))))))).))).(((((....))))).))))(((((((.(((((((........))))))).))))))).... (-29.67 = -31.07 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:24 2006