Locus 7474

Sequence ID	X_DroMel_CAF1
Location	18,658,736 – 18,658,826
Length	90
Max. P	0.960604

overview

Window 2

Location	18,658,736 – 18,658,826
Length	90
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	85.04
Mean single sequence MFE	-31.32
Consensus MFE	-25.40
Energy contribution	-26.04
Covariance contribution	0.64
Combinations/Pair	1.04
Mean z-score	-2.24
Structure conservation index	0.81
SVM decision value	1.52
SVM RNA-class probability	0.960604
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18658736 90 - 22224390
GCUCCUGC---UCCACCUCCACCUGAGCCAACUGCUGGAGCCGCUGUCGGCGUCUCUGUGGCACUAUCCAGUUCCCACGGACACACGGAUAGC
(((((.((---.....(((.....)))......)).))))).((((((.(.((.(((((((.(((....)))..))))))).)).).)))))) ( -35.00)
>DroSec_CAF1 3834 75 - 1
GCUCCUGC---CCCACC---------------UGCUGGAGCCGCUGCCGGCGUCUCUGUGGCACUAUCCAGUUCCCAGGGACACACGGAUAGC
(((((.((---......---------------.)).))))).((((((((.(((((((.((.(((....))).))))))))).).))).)))) ( -34.10)
>DroSim_CAF1 2026 75 - 1
GCUCCUGC---UCCACC---------------UGCUGGAGCCGCUGCCGGCGUCUCUGUGGCACUAUCCAGUUCCCAGGGACACACGGAUAGC
(((((.((---......---------------.)).))))).((((((((.(((((((.((.(((....))).))))))))).).))).)))) ( -35.30)
>DroEre_CAF1 4156 75 - 1
GCUCCACC---UCCCAC---------------UACUGGAGCCGCUGCCGGCGGCUCUGUGGCACUAUCCAGUUCCCAGGGACACACGGAUAGC
........---..((((---------------....((((((((.....))))))))))))..((((((.((((....))))....)))))). ( -29.60)
>DroYak_CAF1 4043 78 - 1
GCUCCUCCUACUCCAAC---------------UGCUGGAGCCGCUGCCGGCGACUCUGUGCCACUAUCGAGUUCCCAGGGACACACGGAUAGC
(((((..(.........---------------.)..))))).((((((((((......))))........((((....))))....)).)))) ( -22.60)
>consensus
GCUCCUGC___UCCACC_______________UGCUGGAGCCGCUGCCGGCGUCUCUGUGGCACUAUCCAGUUCCCAGGGACACACGGAUAGC
(((((...............................))))).((((((((.(((((((.((.(((....))).))))))))).).))).)))) (-25.40 = -26.04 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:51 2006