Locus 1116

Sequence ID 3R_DroMel_CAF1
Location 3,375,208 – 3,375,308
Length 100
Max. P 0.824829
window1827

overview

Window 7

Location 3,375,208 – 3,375,308
Length 100
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 85.19
Mean single sequence MFE -28.62
Consensus MFE -20.34
Energy contribution -20.77
Covariance contribution 0.44
Combinations/Pair 1.24
Mean z-score -1.99
Structure conservation index 0.71
SVM decision value 0.69
SVM RNA-class probability 0.824829
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3375208 100 - 27905053
CCAAUCAGAAUG-------UUAACAGCGAGCGAUAGAAGUAAGCAGUGCAAGCAGUGCAUGUUACCUGCGCGCGCAGCUUCAAUUUAAAUGCUAACAUGAUUGCUUA
.((((((...((-------(((...(((.(((.(((..(((((((.((....)).)))...)))))))))).))).((............))))))))))))).... ( -25.60)
>DroSec_CAF1 3600 100 - 1
CCAAUGAGAAUG-------UUAACAGCGAGCGAGAAAAGUAAGCAGUGAAAGCAGUGCAUGUUAACUGCGCGCGCAGCUUUAAUUUAAAUGUUAACUUGAUUGCUCA
............-------........((((((...((((.((((...(((((.((((.(((.....))).)))).)))))........)))).))))..)))))). ( -27.00)
>DroSim_CAF1 4427 100 - 1
CCAAUCAGAAAG-------UUAACAGCGAAAGAGAAAAGUAAGCAGUGCAAGCAGUGCAUGUUAGCUGCGCGCGCCGCUUUAAUUUAAAUGCUAACAUGAUUGCUCA
.((((((....(-------(((.((.(....)...(((..((((.((((..(((((........)))))..)))).))))...)))...)).)))).)))))).... ( -27.10)
>DroEre_CAF1 3836 107 - 1
CCAAUCAGAAGCUUGAGCUUUAACAGCGAGCGAGGAAUGCAAGCAGUGCAAGCAGUUCAUGUUAGCUGCGCGCGCAGCUAUAAUUCAAAUGUCAGCAUGAUUGCUCA
.(((((((((((....)))))....((..(((..((((...(((.((((..((((((......))))))..)))).)))...))))...)))..)).)))))).... ( -34.80)
>consensus
CCAAUCAGAAUG_______UUAACAGCGAGCGAGAAAAGUAAGCAGUGCAAGCAGUGCAUGUUAGCUGCGCGCGCAGCUUUAAUUUAAAUGCUAACAUGAUUGCUCA
...........................((((((...((((.((((......(((((........)))))((.....))...........)))).))))..)))))). (-20.34 = -20.77 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:19 2006