Locus 2570

Sequence ID 3R_DroMel_CAF1
Location 6,956,196 – 6,956,316
Length 120
Max. P 0.500000
window4195

overview

Window 5

Location 6,956,196 – 6,956,316
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.25
Mean single sequence MFE -22.60
Consensus MFE -19.42
Energy contribution -19.46
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -1.19
Structure conservation index 0.86
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6956196 120 + 27905053
UUUGUGCACUAAAUGCUCUUGGCCUUUAUUCGACUCGACUCGUCUCGUCUCGUCAGUAGAAAAGCCUGAACAACAUUAAUCAGGCUUACCUUGUCGUGUAUUUUUCCCCACCUACAAACA
...(((....((((((...((((.((((((.(((..(((.......)))..))))))))).((((((((..........)))))))).....)))).)))))).....)))......... ( -26.00)
>DroSec_CAF1 5435 110 + 1
UUUGUGCACUAAAUGCUCUUGGCCUUUAUUCGACU-----CGU-----CUCGUCAGUAGAAAAGCCUGAAAAACAUUAAUCUGGCUUACCUUGUCGUGUAUUUUUCCCCACCUACAAACA
...(((....((((((...((((.((((((.(((.-----...-----...))))))))).(((((.((..........)).))))).....)))).)))))).....)))......... ( -18.20)
>DroSim_CAF1 5456 115 + 1
UUUGUGCACUAAAUGCUCUUGGCCUUUAUUCGACU-----CGUCUCGUCUCGUCAGUAGAAAAGCCUGAACAACAUUAAUCAGGCUUACCUUGUCGUGUAUUUUUCCCCACCUACAAACA
...(((....((((((...((((.((((((.(((.-----...........))))))))).((((((((..........)))))))).....)))).)))))).....)))......... ( -22.00)
>DroEre_CAF1 3785 110 + 1
UUUGUGCACUAAAUGCUCUUGGCCUUUAUUCGACU-----GGU-----CUCGUCAGUGGAAAAGCCUGAACAACAUUAAUCAGGCUUACCUUGUCGUGUAUUUUUCCCAACCUACAAACA
...((((((((((.((.....)).))))(((.(((-----((.-----....))))).)))((((((((..........))))))))........))))))................... ( -25.50)
>DroYak_CAF1 6368 110 + 1
UUUAUGCACUAAAUGCUCUUGGCCUUUAUUCGACU-----CGU-----CUCGUCAGUGGAAAAGCCUGAACAACAUUAAUCAGGCUUACCUUGUCGUGUAUUUUUCCCAACCUACAAACA
...((((((((((.((.....)).)))).......-----...-----...(.(((.((..((((((((..........)))))))).))))).)))))))................... ( -21.30)
>consensus
UUUGUGCACUAAAUGCUCUUGGCCUUUAUUCGACU_____CGU_____CUCGUCAGUAGAAAAGCCUGAACAACAUUAAUCAGGCUUACCUUGUCGUGUAUUUUUCCCCACCUACAAACA
...((((((((((.((.....)).))))...(((...............((.......)).((((((((..........)))))))).....)))))))))................... (-19.42 = -19.46 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:35 2006