Locus 4503

Sequence ID 3R_DroMel_CAF1
Location 11,946,388 – 11,946,479
Length 91
Max. P 0.830667
window7360

overview

Window 0

Location 11,946,388 – 11,946,479
Length 91
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 89.60
Mean single sequence MFE -17.33
Consensus MFE -13.07
Energy contribution -12.99
Covariance contribution -0.08
Combinations/Pair 1.13
Mean z-score -2.01
Structure conservation index 0.75
SVM decision value 0.71
SVM RNA-class probability 0.830667
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11946388 91 - 27905053
AAUCCCAGAAAACCCA-----ACCGUUGGGACACAAAAAAAAAAAAAAAUAAGUAAAACGGUUUCUGGAGAGACACCUGUCAUGAGAGCCUCUUAA
..((((((((......-----((((((...((....................))..)))))))))))).))(((....))).((((.....)))). ( -18.05)
>DroSec_CAF1 50900 85 - 1
AAUCCCAGAAAACCCA-----ACCGCUGGGACACACAAAAAAAA------AAGUAAAACGGUUUCUGGAGAGACACCUGUCAUGAGAGCCUCUUAA
..(((((((((.((((-----.....))))..............------..(.....)..))))))).))(((....))).((((.....)))). ( -17.70)
>DroSim_CAF1 50976 84 - 1
AAUCCCAGAAAACCCA-----ACCGUUGGGACACACAAAAA-AA------AAGUAAAACGGUUUCUGGAGAGACACCUGUCAUGAGAGCCUCUUAA
..((((((((......-----((((((...((.........-..------..))..)))))))))))).))(((....))).((((.....)))). ( -18.52)
>DroEre_CAF1 51129 83 - 1
AAUCCAAGAAAACCCA-----ACCGCUGGGACACAAC--AGAAA------AAGUAAAACGGUUCCUGGAGAGACACCUGUCAUGAGAGCCUCUUAA
.....((((...((((-----.....)))).......--.....------.........(((((...((.((....)).))....))))))))).. ( -16.40)
>DroYak_CAF1 51959 90 - 1
AAUCCAAGAAAACCCAAGAAAACCGCUGGGACACAACUAAAAAA------AAGUAAAACGGUUCCUGGAGAGACACCUGUCAUGAGAGCCUCUUAA
.....((((...((((.(.....)..))))..............------.........(((((...((.((....)).))....))))))))).. ( -16.00)
>consensus
AAUCCCAGAAAACCCA_____ACCGCUGGGACACAAAAAAAAAA______AAGUAAAACGGUUUCUGGAGAGACACCUGUCAUGAGAGCCUCUUAA
..((((((.................))))))............................(((((...((.((....)).))....)))))...... (-13.07 = -12.99 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:58 2006