Locus 709

Sequence ID 2R_DroMel_CAF1
Location 3,500,000 – 3,500,096
Length 96
Max. P 0.993604
window1244

overview

Window 4

Location 3,500,000 – 3,500,096
Length 96
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 73.41
Mean single sequence MFE -28.92
Consensus MFE -8.68
Energy contribution -10.32
Covariance contribution 1.64
Combinations/Pair 1.08
Mean z-score -2.45
Structure conservation index 0.30
SVM decision value 2.41
SVM RNA-class probability 0.993604
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3500000 96 - 20766785
UGC----UUGCUGCUCCCAGCAGCAGAGUGCAUUUCCGUCAGCGGUUGGGUCAACUCCCAGAUUAAGUCCAGCUGG-------AGCAGCAACAACAACAACAGCAGU
(((----((((((((((.(((.((.....))....(((....)))(((((......)))))..........)))))-------)))))))...........)))).. ( -33.90)
>DroSec_CAF1 4684 95 - 1
UG--------CUGCUCCCAACAGCAGAGUGCAUUUCCGUCAGCGGUUGGGUCAACUCCCAGAUUAAGUCCAGCUGG----CGCAGCAGCAACAACAACAACAGCAGU
((--------(((((.......((.....)).....((((((((((((((......))))).......)).)))))----)).)))))))................. ( -29.21)
>DroSim_CAF1 4715 95 - 1
UG--------CUGCUCCCAGCAGCAGAGUGCAUUUCCGUCAGCGGUUGGGUGAACUCCCAGAUUAAGUCCAGCUGG----CGUAGCACCAACAACAACAACAGCAGU
((--------((((.....))))))(.((((.....((((((((((((((......))))).......)).)))))----))..))))).................. ( -31.11)
>DroEre_CAF1 4716 91 - 1
---GUUGUUGUUGCUCCCAGCAACAGAGUGCAUUACCGUCAGCAAAUGGGUCAACUCCCAGAUUAAAUCCAGCUGG----CG---------CAACCACAACAACAGU
---(((((.(((((.....(((......)))......((((((...((((......))))(((...)))..)))))----))---------)))).)))))...... ( -30.40)
>DroAna_CAF1 4178 87 - 1
--------------------CAGUAGAGUGCAUUACCGUCAGCGGAUGGGUCAUCUUACAGAUUGCAUCCAUAUGUACUCCAUAACAACAACAAAAACAUCAACAAA
--------------------.....((((((((..(((....)))((((((((((.....)).)).))))))))))))))........................... ( -20.00)
>consensus
UG________CUGCUCCCAGCAGCAGAGUGCAUUUCCGUCAGCGGUUGGGUCAACUCCCAGAUUAAGUCCAGCUGG____CG_AGCAGCAACAACAACAACAGCAGU
................(((((..............(((....))).((((......))))...........)))))............................... ( -8.68 = -10.32 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:10 2006