Locus 8484

Sequence ID X_DroMel_CAF1
Location 21,047,332 – 21,047,434
Length 102
Max. P 0.725793
window13960

overview

Window 0

Location 21,047,332 – 21,047,434
Length 102
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.66
Mean single sequence MFE -31.63
Consensus MFE -20.58
Energy contribution -21.46
Covariance contribution 0.88
Combinations/Pair 1.08
Mean z-score -2.25
Structure conservation index 0.65
SVM decision value 0.41
SVM RNA-class probability 0.725793
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21047332 102 - 22224390
AGGAGUGGCGGGAGCAGAUGGCAGAAAAUUUACAAAAA-CAUCACAAUUUAAGCAGGCCUUUAAAGGCCACUGUCCUGCGUCAGUCCUGUUGU-----------------CUGCUUAAAA
...........(((((((..((((..............-................(((((....)))))((((.(....).)))).))))..)-----------------)))))).... ( -31.00)
>DroSec_CAF1 17652 99 - 1
AG---AGGCGGGAGCAGAUGGCAGCAAAAUUACAAAAA-CAUCACAAUUUAAGCAGGCCUUUAAAGACCACUGUCCUGCGUCAGUCCUGCUGU-----------------CUGCUUAAAA
..---......(((((((((((((..(((((.......-......)))))..(((((.(.............).))))).......)))))))-----------------)))))).... ( -26.34)
>DroSim_CAF1 18219 99 - 1
AG---AGGCGGGAGCAGAUGGCAGCAAAAUUACAAAAA-CAUCACAAUUUAAGCAGGCCUUUAAAGGCCACUGUCCUGCGUCAGUCCUGCUGU-----------------CUGCUUAAAA
..---......(((((((((((((..............-................(((((....)))))((((.(....).)))).)))))))-----------------)))))).... ( -31.90)
>DroEre_CAF1 18355 117 - 1
AG---GGGCGGGAGCAGAUGGCAGUAAAAUUGCAAAAAGCAUCCCAAUUUAAGCAGGCCUUUAAAGGCCACUGUACUGCGACUGCCCUGCUGUCCUGCUGUCCUGUUGUCCUGCUUAAAA
.(---((((((..((((...(((((.....(((.....)))..............(((((....)))))))))).))))..)))))))((.(..(.((......)).)..).))...... ( -41.50)
>DroYak_CAF1 20223 99 - 1
AG---AGGCGGGAGCAGAUGGCAGUAAAAUUACAAAAA-CAUCCCAGUUUAAGCAGUCCUUUAAAGGCCACUUUCCUGCGCCUGUCCUGCUGU-----------------CUGCUUAAAA
..---......(((((((((((((...........(((-(......))))..............((((((......)).))))...)))))))-----------------)))))).... ( -27.40)
>consensus
AG___AGGCGGGAGCAGAUGGCAGCAAAAUUACAAAAA_CAUCACAAUUUAAGCAGGCCUUUAAAGGCCACUGUCCUGCGUCAGUCCUGCUGU_________________CUGCUUAAAA
......(((((((((((..(((((..(((((..............))))).....(((((....))))).))))))))).....)))))))............................. (-20.58 = -21.46 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:05:27 2006