Locus 4146

Sequence ID 3L_DroMel_CAF1
Location 12,106,004 – 12,106,120
Length 116
Max. P 0.688497
window6441

overview

Window 1

Location 12,106,004 – 12,106,120
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 80.83
Mean single sequence MFE -32.05
Consensus MFE -16.33
Energy contribution -16.82
Covariance contribution 0.50
Combinations/Pair 1.04
Mean z-score -2.53
Structure conservation index 0.51
SVM decision value 0.32
SVM RNA-class probability 0.688497
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12106004 116 + 23771897
-CUCACAUUUUUUCUUUCACUGUAUUAAGGUGCAUUCCAGGGAUGCGUACAACCACCUGCAGUUUGCCCCGUGAACGAUAACUAGUUCGCUCAUCUGCACCAAUUGCUCGC---AUCCCU
-...................(((((....)))))....(((((((((..(((.....(((((..((....((((((........)))))).)).)))))....)))..)))---)))))) ( -33.10)
>DroSim_CAF1 6490 116 + 1
-UCUACAUUUUUUCUGUCACUGUAUUAAGGUGCAUUCCAGGGAUGCGUACAACCACCUGCAGUUUGCCCCGUGAACGGUAACUAGUUCGCUCAUCUGCACCAUUUGCUCGC---AUCCCU
-.............((.((((.......))))))....(((((((((..(((.....(((((..((....((((((........)))))).)).)))))....)))..)))---)))))) ( -34.10)
>DroEre_CAF1 6593 106 + 1
GUGCGCCUUUUUUAUGUCACUGUAAUAGGAUGCAUUCCAGGGAUGCGUGCACUCACCUGCAGUUUGC----------GGAACUAGUUCGCCCAUUUGCACCAC-UGCUCGC---AGCCCU
((((((((...((((......)))).))).)))))...((((.((((.(((......(((((...((----------(((.....)))))....)))))....-))).)))---).)))) ( -33.20)
>DroYak_CAF1 6546 109 + 1
AUGCACCUUUUUUCUCUCACUGUAAUAUGAUGCAUUCCAGGGAUGCGUGCACUCACCUGCAGCUUGC----------GGAACUAGUUCGCUCAUUUGCACCAC-UGCUCGCUGCAUCCCU
.(((((..........(((........))).(((((.....))))))))))......((((((..((----------((((....)))((......)).....-)))..))))))..... ( -27.80)
>consensus
_UGCACAUUUUUUCUGUCACUGUAAUAAGAUGCAUUCCAGGGAUGCGUACAACCACCUGCAGUUUGC__________GGAACUAGUUCGCUCAUCUGCACCAC_UGCUCGC___AUCCCU
....................((((......))))....(((((((((.(((......(((((...((.....................))....))))).....))).)))...)))))) (-16.33 = -16.82 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:30 2006