Locus 3913

Sequence ID 3L_DroMel_CAF1
Location 11,328,386 – 11,328,476
Length 90
Max. P 0.511966
window6092

overview

Window 2

Location 11,328,386 – 11,328,476
Length 90
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 88.33
Mean single sequence MFE -17.68
Consensus MFE -14.19
Energy contribution -14.55
Covariance contribution 0.36
Combinations/Pair 1.05
Mean z-score -1.93
Structure conservation index 0.80
SVM decision value -0.04
SVM RNA-class probability 0.511966
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11328386 90 + 23771897
-----UAUGUUUGCACAUUGAUAAGCUCGAUGUGAAAACAUAAACAAAUAUUUAUGCGCCUAUUAAUGCCCAUACACACAGGCCCUGUCCCCAUC
-----(((((((.((((((((.....)))))))).)))))))..........((((.((........)).))))...((((...))))....... ( -18.40)
>DroSec_CAF1 49036 90 + 1
-----UAUGUUUGCACAUUGAUAAGCUCGAUGUGAAAACAUAAACAAAUAUUUAUGCGCCUAUUAAUGCCCAUGCACACAGGCCCUGUUCCCAUC
-----(((((((.((((((((.....)))))))).)))))))...............((((.....(((....)))...))))............ ( -20.90)
>DroSim_CAF1 56206 90 + 1
-----UAUGUUUGCACAUUGAUAAGCUCGAUGUGAAAACAUAAACAAAUAUUUAUGCGCCUAUUAAUGCCCAUGCACACAGGCCCUGUUCCCAUC
-----(((((((.((((((((.....)))))))).)))))))...............((((.....(((....)))...))))............ ( -20.90)
>DroEre_CAF1 53049 86 + 1
-----UAUGUUUGCACAUUGAUAAGCUGAAUGUGAAAACAUAAACAAAUAUUUAUGCGCCUAUUAAUGCCCAU----ACAGUCCCUGUCCCCAUA
-----(((((((.((((((.(.....).)))))).)))))))..........((((.((........)).)))----)................. ( -14.00)
>DroYak_CAF1 41362 86 + 1
-----UAUGUUUGCACAUUGAUAAGCUCGAUGUGAAAACAUAAACAAAUAUUUAUGCGCCUAUUAAUGCCCAU----ACAGUCCCUGUCCUCAUA
-----(((((((.((((((((.....)))))))).)))))))..........((((.((........)).)))----)................. ( -17.80)
>DroAna_CAF1 41313 87 + 1
GACUAUAUGUUUGCAGAUUGAUAAGCGCGAUGUGAAAACAUAAACAAAUAUUUAUGCGCCUAUUUAUGCCCAUUCCCAG-----CUGUCCC-A--
(((...(((...(((....((((.(((((((((....)))).............))))).))))..))).)))......-----..)))..-.-- ( -14.11)
>consensus
_____UAUGUUUGCACAUUGAUAAGCUCGAUGUGAAAACAUAAACAAAUAUUUAUGCGCCUAUUAAUGCCCAU_CACACAGGCCCUGUCCCCAUC
.....(((((((.((((((((.....)))))))).)))))))...........(((.((........)).)))...................... (-14.19 = -14.55 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:51 2006