Locus 88

Sequence ID 4_DroMel_CAF1
Location 649,910 – 650,019
Length 109
Max. P 0.500000
window139

overview

Window 9

Location 649,910 – 650,019
Length 109
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.69
Mean single sequence MFE -30.10
Consensus MFE -20.78
Energy contribution -22.18
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -1.81
Structure conservation index 0.69
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 649910 109 - 1281640
-----GUCUUUUGCUCUCGUUUUUGACUUAGUU------CAGAGUCACAAAAACAGCACCCUCGCCGGGCAAUUGCUGGUAUUAAACUGAGUAGCUAAGCUACCUAAUACAAUGCUCUGU
-----(((....((....))....)))......------((((((........((((((((.....)))....)))))((((((....(.(((((...))))))))))))...)))))). ( -26.60)
>DroSec_CAF1 6145 115 - 1
-----GGCUUUUGCUCUCGUUUUUGACUUUGUUCAGGUUCAGAGUCACAGAAACAGCACCCUCGCAGGGCAAUUGCUGGUAUUAAACUGAGUAGCUAAGCUACCUAAUACUAUGCUCUGU
-----(((..(((((((.(((((((((((((........))))))))..))))).((......)))))))))..)))(((((((....(.(((((...)))))))))))))......... ( -34.60)
>DroSim_CAF1 5707 109 - 1
-----GGCUUUUGCUCUCGUUUUUGACUUUGUU------CAGAGUCACAAAAACAGCACCCUCGCAGGGCAAUUGCUGGUAUUAAACUGAGUAGCUAAGCUACCUAAUACUAUGCUCUGU
-----(((..(((((((.((((((((((((...------.)))))))..))))).((......)))))))))..)))(((((((....(.(((((...)))))))))))))......... ( -31.80)
>DroEre_CAF1 5394 114 - 1
GGCUAGACUUUUGCUCUCGAUUUUGACUAAGUU------CAGAGUCACAAAAACAGCACCCUCGCAGGGCAAUUGCUGGUAUUAAACUGAGUAGCUAAGCUACCGAAUACGAUGCUCUGU
((.(((.(((..((((((((((((((......)------))))))).......((((((((.....)))....)))))..........))).))).))))))))................ ( -30.80)
>DroYak_CAF1 4920 111 - 1
GGCUAGGCUUUUGCUCUCGAUUUCGACUAAAUU------CAGAGUCACAAAAACAGCACCCUCACAGGGCAAUUGCUGGUAUUAAACUGA---GCUAAGCUACCAAAUACGAUGCUCUAU
((...(((((..((((..((((..((......)------)..)))).......((((((((.....)))....)))))..........))---)).))))).))................ ( -26.70)
>consensus
_____GGCUUUUGCUCUCGUUUUUGACUUAGUU______CAGAGUCACAAAAACAGCACCCUCGCAGGGCAAUUGCUGGUAUUAAACUGAGUAGCUAAGCUACCUAAUACGAUGCUCUGU
.....(((((..((((((......(((((.(........).))))).......((((((((.....)))....)))))..........))).))).)))))................... (-20.78 = -22.18 +   1.40) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:16 2006