Locus 564

Sequence ID 3L_DroMel_CAF1
Location 1,620,142 – 1,620,233
Length 91
Max. P 0.512127
window862

overview

Window 2

Location 1,620,142 – 1,620,233
Length 91
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 78.66
Mean single sequence MFE -28.56
Consensus MFE -17.55
Energy contribution -19.63
Covariance contribution 2.08
Combinations/Pair 1.12
Mean z-score -1.38
Structure conservation index 0.61
SVM decision value -0.04
SVM RNA-class probability 0.512127
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1620142 91 - 23771897
CGCAGCAUGGGUCGCUCAUUUCAUUUGUC--AUUUGUCCAA--------GUGC-UCGCGCCCGUAAAAUCCGUAAAAGGAACACGGGCCAGCUGCAGCUGCC
.(((((..(((.((((.....((......--...))....)--------))))-))(.((((((....(((......)))..))))))).)))))....... ( -29.30)
>DroSec_CAF1 4854 75 - 1
CGCAGCAUGGGUCCUUCAUUUC------------------A--------GUGC-UCGCGACCGUAAAAUCCGUAAAAGGAACACGGGCCAGCUGCAGCUGCC
.(((((..(((..((.......------------------)--------)..)-))((..((((....(((......)))..))))....))....))))). ( -23.00)
>DroSim_CAF1 4806 91 - 1
CGCAGCAUGGGUCGCUCAUUUCAUUUGUC--AUUUCUCCAA--------GUGC-UCGCACCCGUAAAAUCCGUAAAAGGAACACGGGCCAGCUGCAGCUGCC
.(((((.(((...((......((((((..--.......)))--------))).-..)).(((((....(((......)))..)))))))))))))....... ( -27.00)
>DroEre_CAF1 5130 91 - 1
CGCAGCAUGGGUCGCCCAUUUCAUUUGUC--AUUUGUCCAA--------GUGC-UCGCGCCCGUAAAAUCCGUAAAAGGAACACGGGCCAGCUGCAGCUGCC
.((((((((((...)))))..........--..........--------((((-(.(.((((((....(((......)))..)))))))))).)).))))). ( -31.40)
>DroYak_CAF1 4617 91 - 1
CGCAGCAUGGGUCGCCCAUUUCAUUUGUC--AUUUGUCCAA--------GUGC-UCGUGCCCGUAAAAUCCGUAAAAGGAACACGGGCCAGCUGCAGCUGCC
.((((((((((...)))))..........--..........--------((((-(.(.((((((....(((......)))..)))))))))).)).))))). ( -31.40)
>DroPer_CAF1 4888 95 - 1
CGCAGCAUGGGCCCAGCAUUUCAUUUGUCCAAAUAGUCCAUUUCGAUUGGGGCACCGCACCCGAAGUG---GCUCCAGCAACA----GCAGCUGCAGCUCCC
.(((((.(((((..............)))))...((.((((((((..((.(....).))..)))))))---)))...((....----)).)))))....... ( -29.24)
>consensus
CGCAGCAUGGGUCGCUCAUUUCAUUUGUC__AUUUGUCCAA________GUGC_UCGCGCCCGUAAAAUCCGUAAAAGGAACACGGGCCAGCUGCAGCUGCC
.((((((((((...)))))...............................(((...((((((((....(((......)))..))))))..)).)))))))). (-17.55 = -19.63 +   2.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:26 2006