Locus 4740

Sequence ID 2L_DroMel_CAF1
Location 13,559,244 – 13,559,340
Length 96
Max. P 0.694443
window7494

overview

Window 4

Location 13,559,244 – 13,559,340
Length 96
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 79.77
Mean single sequence MFE -27.36
Consensus MFE -20.64
Energy contribution -21.84
Covariance contribution 1.20
Combinations/Pair 1.00
Mean z-score -1.54
Structure conservation index 0.75
SVM decision value 0.34
SVM RNA-class probability 0.694443
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13559244 96 - 22407834
--GCCACAUAUUAUAAAUUGCACCACGGGGAGCCGUGCCGAAGUGCCGGCGUGUGAAUGGUCCAAAUGUGUGGAGCUCUAGGAAA-----------AAAAAUAGGUGCA
--.(((((((((((...(..(((.((((....))))((((......)))))))..)...))...))))))))).((((((.....-----------.....)))).)). ( -30.70)
>DroSec_CAF1 20437 104 - 1
--GCCACAUAUUAUAAAUUGCACCACGGAGAGCCGUGCCGAAGUGCCGGCGUGUGAAUGGGCCAAAUGUGUGGGGCUCUAAACAAAAAAAA-GU--AAAAAUAGGUGCA
--................((((((((((....))))((((......)))).(((....(((((..(....)..)))))...))).......-..--.......)))))) ( -29.20)
>DroSim_CAF1 27999 107 - 1
--GCCACAUAUUAUAAAUUGCACCACGGAGAGCCGUGCCGAAGUGCCGGCGUGUGAAUGGGCCAAAUGUGUGGAGCUCUAAACAAAAAAAAAAUAAAAAAAUAGGUGCA
--.(((((((((.......(((((((((....))))).....)))).(((.(......).))).))))))))).((((((.....................)))).)). ( -28.00)
>DroEre_CAF1 19830 89 - 1
CCGCCACAUAUUAUAAAUUGCACCACGGGGAGGCGUGCCAAAGUGCCGGCGUGUGAAUGGGCCAUAUGUGCGGGCCCCUAAAAAAAAA----U----------------
((((.((((((........((((((((......)))).....)))).(((.(......).)))))))))))))...............----.---------------- ( -24.00)
>DroYak_CAF1 18230 91 - 1
--GCCACAUAUUAUAAAUUGCCCCACGGAGAGCCGUGCCGAAGUGCCGGCGUGUGAAUGGGCCAAAUGUGCGGGCAUCUAAGAAAAAAAAA-UU---------------
--(((.((((((.......((((.((((....))))((((......))))........))))..))))))..)))................-..--------------- ( -24.90)
>consensus
__GCCACAUAUUAUAAAUUGCACCACGGAGAGCCGUGCCGAAGUGCCGGCGUGUGAAUGGGCCAAAUGUGUGGGGCUCUAAAAAAAAAAAA_UU__AAAAAUAGGUGCA
...(((((((((.......(((((((((....))))).....)))).(((.(......).))).))))))))).................................... (-20.64 = -21.84 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:56 2006