Locus 4117

Sequence ID 3L_DroMel_CAF1
Location 12,015,201 – 12,015,299
Length 98
Max. P 0.816287
window6404

overview

Window 4

Location 12,015,201 – 12,015,299
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 87.92
Mean single sequence MFE -23.60
Consensus MFE -16.36
Energy contribution -16.76
Covariance contribution 0.40
Combinations/Pair 1.19
Mean z-score -2.43
Structure conservation index 0.69
SVM decision value 0.67
SVM RNA-class probability 0.816287
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12015201 98 - 23771897
GGCGAUAAAAGGAGGGGGCAUGCCCAACUAUUUACACCAAAAUCCAGGUUAUAUGAGUACAAACUUUAUCGCUGGGCAAGUCACUUCAAACUUUAAAG
...........((((.(((.((((((.(.......(((........))).....((((....))))....).)))))).))).))))........... ( -20.90)
>DroSec_CAF1 33269 91 - 1
-----U--AAAGAGGGGGCAUGCCCAACUAUUUACACCAAAAUCCAGGUUAUAUGAGUACAAACUUUAUCGCUGGGCAAGUCACUUCAAACUUUAAAG
-----.--...((((.(((.((((((.(.......(((........))).....((((....))))....).)))))).))).))))........... ( -21.10)
>DroSim_CAF1 32499 91 - 1
-----U--AAAGAGGGGGCAUGCCCAACUAUUUACACCAAAAUCCAGGUUAUAUGAGUACAAACUUUAUCGCUGGGCAAGUCACUUCAAACUUUAAAG
-----.--...((((.(((.((((((.(.......(((........))).....((((....))))....).)))))).))).))))........... ( -21.10)
>DroEre_CAF1 35069 93 - 1
GGCGAU--AA---AGGGGCAUGCCCAACUAUUUACACCAAAAUCCAGGUUAUAUAGGUACAAACUUUAUCGCCCGGCAAGCCACUACACUCUUUAAAG
((((((--((---(((((....)))..((((.((.(((........))))).)))).......)))))))))).((....))................ ( -27.60)
>DroYak_CAF1 33354 93 - 1
GGCGAU--AA---AGGGGCAUGCCCAACUAUUUACACCAAAAUCCAGGUUAUAUAGCCACAAACUUUAUCGCCGGGCCAGCCACUUCAAACUUUAAAG
((((((--((---(((((....)))..((((.((.(((........))))).)))).......)))))))))).((....))................ ( -27.30)
>consensus
GGCGAU__AA_GAGGGGGCAUGCCCAACUAUUUACACCAAAAUCCAGGUUAUAUGAGUACAAACUUUAUCGCUGGGCAAGUCACUUCAAACUUUAAAG
...........((((.(((.(((((....((((......))))...(((.(((.((((....))))))).)))))))).))).))))........... (-16.36 = -16.76 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:53 2006