Locus 4405

Sequence ID 3R_DroMel_CAF1
Location 11,642,205 – 11,642,303
Length 98
Max. P 0.936131
window7192

overview

Window 2

Location 11,642,205 – 11,642,303
Length 98
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 59.17
Mean single sequence MFE -17.92
Consensus MFE -7.60
Energy contribution -8.35
Covariance contribution 0.75
Combinations/Pair 1.25
Mean z-score -2.25
Structure conservation index 0.42
SVM decision value 1.25
SVM RNA-class probability 0.936131
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11642205 98 + 27905053
-CAAUGAAAUG------------AAACA-------AAAAAAAACCUGU-GAGUCAUAAGGCCGAACUACCCACACCCAUACCCUGGAUUUUUGCCACUCAACAGG-GUGGCAAAUAUAUA
-..........------------.....-------..........(((-(.((....((......)))).)))).(((.....)))...((((((((((....))-))))))))...... ( -19.10)
>DroSec_CAF1 23116 96 + 1
-AAAUAAAAUG------------AAUAA-------AAAUAAUUCAUGU-GAGCCAUUAAACCGAACUACCCACGCACAUACCCUUGAUGUUUGCCACUCAACAGG-GUGGCAAAUA--UA
-.......(((------------(((..-------.....))))))((-(.((....................)).))).......(((((((((((((....))-))))))))))--). ( -21.75)
>DroSim_CAF1 25204 115 + 1
-UAAUAAAAUUUAAACGCCUAAAAAUAAAAUAAACAAAUAAUUCAUGU-GAGCCAUUAAACCGAACUACCCACACACAUACCCUUGAUGUUUGCCACUCAACAGG-GUGGCAAAUA--UA
-...........................................((((-(........................))))).......(((((((((((((....))-))))))))))--). ( -20.16)
>DroAna_CAF1 21060 90 + 1
ACAUUAAAUUA------------UU-GU---AAA-AAGUAUAGCGAUUCGUAGACUUAAGUC-----------CAAUAUACCCUAAGCUUUUCUCAGCCAUCAGGUAUAAAAGAUA--UA
...........------------.(-(.---.((-((((.(((.........(((....)))-----------.........))).))))))..))(((....)))..........--.. ( -10.67)
>consensus
_CAAUAAAAUG____________AAUAA_______AAAUAAAUCAUGU_GAGCCAUUAAACCGAACUACCCACACACAUACCCUUGAUGUUUGCCACUCAACAGG_GUGGCAAAUA__UA
.......................................................................................((((((((((((....)).)))))))))).... ( -7.60 =  -8.35 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:16 2006