Locus 935

Sequence ID 3R_DroMel_CAF1
Location 3,120,123 – 3,120,237
Length 114
Max. P 0.983226
window1487

overview

Window 7

Location 3,120,123 – 3,120,237
Length 114
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 95.08
Mean single sequence MFE -37.34
Consensus MFE -33.10
Energy contribution -34.58
Covariance contribution 1.48
Combinations/Pair 1.10
Mean z-score -1.80
Structure conservation index 0.89
SVM decision value 1.94
SVM RNA-class probability 0.983226
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3120123 114 + 27905053
GGUGACUCACCUUUCUGCAGAUUGUUGUGAUGGUGGUCGUUCAUUUUGGCCUGAAAGGGAAAGGAGAACACGGAUUGGCAUUUAGUUAAUGCGUCACUAGGCGGUCGCAGAAGU
((((...))))(((((((.(((((((....(((((...((((.((((..(((....)))..))))))))(((.((((((.....)))))).)))))))))))))))))))))). ( -40.20)
>DroSec_CAF1 7758 114 + 1
GGUGACUCACCUUUCUGCAGAUUGUUGUGGUGGUGGUCGUUCAUUUUGGUCUGAAAGGGAAAGGAGAACACGGAUUGGCAUUUAGUUAAUGCGUCACUAGGCGGUCGCAGAAGU
((((...))))(((((((.(((((((.(((((......((((.((((..(((....)))..))))))))(((.((((((.....)))))).)))))))))))))))))))))). ( -39.00)
>DroSim_CAF1 13030 114 + 1
GGUGACUCACCUUUCUGCAGAUUGUUGUGGUGGUGGUCGUUCAUUUUGGCCUGAAAGGGAAAGGAGAACACGGAUUGGCAUUUAGUUAAUGCGUCACUAGGCAGUCGUAGAAGU
((((...))))(((((((.(((((((.(((((......((((.((((..(((....)))..))))))))(((.((((((.....)))))).)))))))))))))))))))))). ( -40.40)
>DroEre_CAF1 7426 113 + 1
-GUGACUCACCUUUCUGCAGAUUGUUGUGGUGGUGGUCGUUCAUUUUGGCCUGAAAGGGAAAGGAGAACACGGAUUGACAUUUAGUUAAUGCGUCACUAGGCGGUCCCAGAAGC
-(.((((((((...(..(((....)))..).))))(((((((.((((..(((....)))..))))))))(((.((((((.....)))))).))).....))))))).)...... ( -34.70)
>DroYak_CAF1 11266 113 + 1
-GUGACUCACCUUUCUGCAGAUUGUUGUGGUGGUGGUCGUUCAUUUUGGCCUAAAAGGGAAAGGAGAACACGGAUUGACAUUUAGUUAAUGCGUCACUAGGCGGUCCCAAGCGC
-(.((((((((...(..(((....)))..).))))(((((((.((((..(((....)))..))))))))(((.((((((.....)))))).))).....))))))).)...... ( -32.40)
>consensus
GGUGACUCACCUUUCUGCAGAUUGUUGUGGUGGUGGUCGUUCAUUUUGGCCUGAAAGGGAAAGGAGAACACGGAUUGGCAUUUAGUUAAUGCGUCACUAGGCGGUCGCAGAAGU
.((((((((((...((((((....)))))).))))(((((((.((((..(((....)))..))))))))(((.((((((.....)))))).))).....)))))))))...... (-33.10 = -34.58 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:53 2006