Locus 5317

Sequence ID X_DroMel_CAF1
Location 13,904,591 – 13,904,704
Length 113
Max. P 0.697652
window8604

overview

Window 4

Location 13,904,591 – 13,904,704
Length 113
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 74.59
Mean single sequence MFE -25.55
Consensus MFE -22.54
Energy contribution -21.98
Covariance contribution -0.56
Combinations/Pair 1.13
Mean z-score -0.69
Structure conservation index 0.88
SVM decision value 0.34
SVM RNA-class probability 0.697652
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13904591 113 + 22224390
GUGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGU---UUGUAAGCUUAAUU-UGUAUUUUUACAAACAAAAAAAAAUACUAU--
(..(((...((((((((.......))))))((((...))))))(((((.......))))).)))..)((---(((((((..((...-..))..)))))))))...............-- ( -29.00)
>DroGri_CAF1 34397 105 + 1
GCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUGCCGACUGCGCAAUAUCUAAAAUU-GCUUUUUU---UU-C---------AAUUUAUUUUUG
((((((...((((((((.......))))))((((...))))))(((((.......))))).))))))(((((.......)))-))......---..-.---------............ ( -27.90)
>DroSec_CAF1 5105 88 + 1
GUGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGU---UUGUAAGCAUAUUU-UUUA-------------------------U--
(..(((...((((((((.......))))))((((...))))))(((((.......))))).)))..)..---..............-....-------------------------.-- ( -21.30)
>DroEre_CAF1 920 103 + 1
GUGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGU---UUGCGAGCUAGAUU-UUUG---UG-C-----AAAAAAAUAAUUA---
(..(((...((((((((.......))))))((((...))))))(((((.......))))).)))..).(---(((((.........-....---))-)-----)))..........--- ( -24.02)
>consensus
GUGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGU___UUGUAAGCUUAAUU_UUUA___UU_C_________AAAUUAUUAU__
((((((...((((((((.......))))))((((...))))))(((((.......))))).)))))).................................................... (-22.54 = -21.98 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:42 2006