Locus 7484

Sequence ID 3L_DroMel_CAF1
Location 20,081,732 – 20,081,826
Length 94
Max. P 0.856828
window12167

overview

Window 7

Location 20,081,732 – 20,081,826
Length 94
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 80.00
Mean single sequence MFE -32.48
Consensus MFE -21.05
Energy contribution -22.55
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -2.01
Structure conservation index 0.65
SVM decision value 0.81
SVM RNA-class probability 0.856828
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20081732 94 + 23771897
GUGGAGGAG---CAGGAGGACCG-GGACAGAGUUUUCCCUGCUCGGGGCUCAUUAUUUCCCCGAGUAAUAUGCUAAAAUGACGGGAACGCACUCACAC
((((((.((---((((((((((.-.....).))))))).(((((((((..........)))))))))...))))....((.((....))))))).))) ( -34.70)
>DroSec_CAF1 19535 95 + 1
GUGGAGGAG---GAGGAGGACCCGGACGAGAGUGUUCCCUGCUCGGGGCUCAUUAUUUCCCCGAGUAAUAUGCUAAAAUGACGGGAACGCACUCACAC
(((.....(---(.(.....)))....(((.(((((((((((((((((..........))))))))).(((......)))..)))))))).))).))) ( -35.40)
>DroSim_CAF1 18075 98 + 1
GUGGAGGAGGAGGAGGAGGACCCGGGCCAGAGUGUUCCCUGCUCGGGGCUCAUUAUUUCCCCGAGUAAUAUGCUAAAAUGACGGGAACGCACUCACAC
((((((..((.((.(.....)))...))...(((((((((((((((((..........))))))))).(((......)))..)))))))).))).))) ( -38.00)
>DroEre_CAF1 18169 89 + 1
------GAG---CAGGAGAACCCGGGGCAGCGUGUUCCCAGCUCGGGGCUCAUUAUUUCCCCGAGUAAUAUGCUAAAAUGACGGGAACGCACUUACAC
------..(---(.((.....))...))((.((((((((.((((((((..........))))))))..(((......)))..)))))))).))..... ( -32.30)
>DroYak_CAF1 21013 89 + 1
------GAG---GAGGAGAAGCCGAGGCACCGUGUUCCCUGCUCGGGGCUCAUUAUUUCCCCGAGUAAUAUGCUAAAAUGACGGGAACGCACUCACAC
------...---(((.....((....))...(((((((((((((((((..........))))))))).(((......)))..)))))))).))).... ( -34.30)
>DroPer_CAF1 17953 73 + 1
----AGGAG---CAGCG-------G---------GCCCCAGCUCGGGGCUCAUUAUUUCCCCAAGUAAUAUGCUAAAAUGACUCGAACACACAGGC--
----...((---((..(-------(---------(((((.....)))))))(((((((....))))))).))))......................-- ( -20.20)
>consensus
____AGGAG___CAGGAGGACCCGGGCCAGAGUGUUCCCUGCUCGGGGCUCAUUAUUUCCCCGAGUAAUAUGCUAAAAUGACGGGAACGCACUCACAC
...............................((((((((.((((((((..........))))))))..(((......)))..))))))))........ (-21.05 = -22.55 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:21 2006