Locus 9563

Sequence ID 3R_DroMel_CAF1
Location 25,264,710 – 25,264,803
Length 93
Max. P 0.858504
window15293

overview

Window 3

Location 25,264,710 – 25,264,803
Length 93
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 75.61
Mean single sequence MFE -17.47
Consensus MFE -10.41
Energy contribution -10.60
Covariance contribution 0.19
Combinations/Pair 1.08
Mean z-score -1.72
Structure conservation index 0.60
SVM decision value 0.82
SVM RNA-class probability 0.858504
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25264710 93 + 27905053
GCCGCAGACAAAACUAUGCACAUUUAACGCUAAAUAUGCCAACUGCCACUCCCCCU--U-UUCAGCAAGGACCACUCCCCUGGCCGCCGUCCCCUU------
(((((((..........(((.(((((....))))).)))...)))).......(((--(-......))))...........)))............------ ( -12.82)
>DroSec_CAF1 121790 92 + 1
GCCGCAGACAAAACUAUGCACAUUUAACGCUAAAUGUGCCGCCUGCCACUCCCCCU--UUUUCAGCAAGGACCACUC--CUGGCCGCCGUCCCCUU------
......(((........(((((((((....))))))))).((((((..........--......)))((((....))--)))))....))).....------ ( -19.89)
>DroSim_CAF1 123960 91 + 1
GCCGCAGACAAAACUAUGCACAUUUAACGCUAAAUGUGCCGCCUGCCACUCCCCCU--U-CUCAGCAAGGACCACUC--CUGGCCGCCGCCCCCUU------
((.((............(((((((((....))))))))).((((((..........--.-....)))((((....))--))))).)).))......------ ( -21.56)
>DroEre_CAF1 138978 75 + 1
GCCGCAGACAAAACUAUGCACAUUUAACGCUAAAUGUGCCGGCUGCCACUCCUCCU--U-UC------------------CAGCCUCCGCCCCCUU------
...((.((.........(((((((((....))))))))).(((((...........--.-..------------------))))))).))......------ ( -17.94)
>DroYak_CAF1 126550 77 + 1
GCCGCAGACAAAACUAUGCACAUUUAACGCUAAAUGUGCCGGCUGCCACUCCCCCAACC-AC------------------CAGCCUCCGCCCCCUU------
...((.((.........(((((((((....))))))))).(((((..............-..------------------))))))).))......------ ( -17.79)
>DroPer_CAF1 125618 87 + 1
GCCGCAGACAAAACUAUGCACAUUUAACGCUAAAUGGGUUGUCUGCCACUCCCACU--C------------CCACUUC-CCAGUUGCCAGCCUCUUCUUUGG
...((((((((..(...((.........)).....)..))))))))..........--.------------.......-.......((((........)))) ( -14.80)
>consensus
GCCGCAGACAAAACUAUGCACAUUUAACGCUAAAUGUGCCGCCUGCCACUCCCCCU__U_UU_________CCACUC__CCAGCCGCCGCCCCCUU______
...((((..........(((((((((....)))))))))...))))........................................................ (-10.41 = -10.60 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:37:14 2006