Locus 3250

Sequence ID 2L_DroMel_CAF1
Location 9,383,754 – 9,383,861
Length 107
Max. P 0.536929
window5161

overview

Window 1

Location 9,383,754 – 9,383,861
Length 107
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 80.84
Mean single sequence MFE -32.93
Consensus MFE -20.83
Energy contribution -22.97
Covariance contribution 2.14
Combinations/Pair 1.16
Mean z-score -1.50
Structure conservation index 0.63
SVM decision value 0.01
SVM RNA-class probability 0.536929
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9383754 107 - 22407834
GAGUCCCUCCAGGGGGUGUGGUUAAAGCUGGGGGUCCAUCGGAAAACCCAUCGCCCUUGUG---GAAUAU------AUGUAUAAUCAAAUUAUGCACGCACCAAAUGCUCCAGACA
(((((((....)))((((((......((((((..(((...)))...))))..))((....)---).....------.((((((((...))))))))))))))....))))...... ( -31.30)
>DroSec_CAF1 16216 107 - 1
GAGUCCCUCCAGGGGGUGUGGUUACAGCUGGGGGUCCUUCGGAAAACCCACCCUCCUUGGG---GAAUAU------AUGUAUAAUCAAAUUAUGCACGCACCAAAUGCUCCAGACA
..(((((((.((((((((.((((....((((((...))))))..))))))))).))).)))---).....------.((((((((...)))))))).(((.....)))....))). ( -36.30)
>DroSim_CAF1 15990 103 - 1
GAGUCCCUCCAGGGGGUGUGGUUACAGCUGGGGGUCCUUCGGAAAACCCACCCUCCUUGGG---GAAUAU----------AUAAUCAAAUUAUGCACGCACCAAAUGCUCCAGACA
..(((((((.((((((((.((((....((((((...))))))..))))))))).))).)))---).....----------.................(((.....)))....))). ( -32.60)
>DroEre_CAF1 15973 112 - 1
GAGUCCCUCCAGGGGGUGUGGUUAUAGCUAGGGGUCCUUUGGC-GACCCACCCUCCUUGGG---GAAUAUACUUGUAUGUAUAAUCAAAUUAUGCACGCACCAAAUGCUCCAGACA
((((.((((.((((((((.((((...(((((((...)))))))-))))))))).))).)))---)........((..((((((((...))))))))..))......))))...... ( -40.00)
>DroYak_CAF1 16796 107 - 1
GAGUCCCUCCAGGGGGUGUGGUUAAGGCUAGGGGUCCUUCGGAAAACCCACCCUUCUUGGG---GAAUAU------AUGUAUAAUCAAAUUAUGCACGCACCAAAUGCUCCAGACA
(((((((....)))((((((..........(((.(((...)))...))).((((....)))---).....------.((((((((...))))))))))))))....))))...... ( -34.00)
>DroPer_CAF1 18644 92 - 1
GAGUCC-UCGAGGGGCAACGAU-----------CUCCUCC--AUUAUGCAGUGUCCUAGGGUGGGGU----------UGUAUAAUCAAAUUAUGCACGCACCAAAAGCUUCAGACA
..(((.-..((((((.......-----------)))))).--....((.(((.......((((.(..----------((((((((...))))))))).))))....))).))))). ( -23.40)
>consensus
GAGUCCCUCCAGGGGGUGUGGUUAAAGCUGGGGGUCCUUCGGAAAACCCACCCUCCUUGGG___GAAUAU______AUGUAUAAUCAAAUUAUGCACGCACCAAAUGCUCCAGACA
..(((...((((((((.((((......((((((...)))))).....)))).)))))))).................((((((((...)))))))).(((.....)))....))). (-20.83 = -22.97 +   2.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:58 2006