Locus 5336

Sequence ID X_DroMel_CAF1
Location 13,924,730 – 13,924,839
Length 109
Max. P 0.737376
window8643

overview

Window 3

Location 13,924,730 – 13,924,839
Length 109
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.07
Mean single sequence MFE -28.13
Consensus MFE -20.10
Energy contribution -20.70
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.71
SVM decision value 0.44
SVM RNA-class probability 0.737376
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13924730 109 - 22224390
CGAUAUAAUUCCCAUCAAUCGGGGGAAUUUGCUGGAGACAGCUGCCUGCCACAUCGCACUUCAUAUUUGUGGCAGCUCCUCAAGAGCUAAUUUAAAUGCAU-------UAUA----AUAC
......(((((((.((....))))))))).((((....))))(((..((((((..............))))))(((((.....))))).........))).-------....----.... ( -32.84)
>DroSec_CAF1 4915 108 - 1
CGAUAUAAUUCACAUCAAUCGGGGGAAUUCGCUGGAGACAGCUGCCUGCCAAAUCGCACUUCAUAUUUGUGGCAAC-CCUCAAGAGUUAAUUUAAAUGCAU-------UAUA----AUAC
...((((((.((........(((((.....((((....))))((((...(((((..........))))).)))).)-)))).(((.....)))...)).))-------))))----.... ( -24.70)
>DroSim_CAF1 6882 108 - 1
CGAUAUAAUUCCCAUCAAUCGGGGGAAUUCGCUGGAGACAGCUGCCUGCCAAAUCGCACUUCAUAUUUGUGGCAAC-CCUCAAGAGUUAAUUUAAAUGCAU-------UAUA----AUAC
...((((((...........(((((.....((((....))))((((...(((((..........))))).)))).)-))))....((..........))))-------))))----.... ( -24.10)
>DroEre_CAF1 6740 110 - 1
CGAUAUAAUUCGCAUCAAUCGGGGGAAUUUGCUGGAGACAGCUGCGUGCCACAUCGCACUUCAUGCUUGUGGCAAC-CCUCAAGAGUUG-----AAUGCAUUUAGCCAUACA----AUAU
.((......))((((((((.(((((.....((((....))))....(((((((..(((.....))).))))))).)-))))....))))-----.)))).............----.... ( -36.70)
>DroYak_CAF1 6357 107 - 1
CGAUAUAAUUCCCAUCAAUCGGGGGAAUUUGCUGCAGACAGCUGCCUGCCACAUCGCACUUCAUAUUUGUGUCAAC-CCUCAGAAGUUA-----AAUG-------CCAUACAUGACACAC
((((..(((((((.((....))))))))).((.((((....))))..))...))))...........(((((((((-........))).-----.(((-------.....))))))))). ( -22.30)
>consensus
CGAUAUAAUUCCCAUCAAUCGGGGGAAUUUGCUGGAGACAGCUGCCUGCCACAUCGCACUUCAUAUUUGUGGCAAC_CCUCAAGAGUUAAUUUAAAUGCAU_______UAUA____AUAC
((((.............))))((((.....((((....))))....(((((((..............)))))))...))))....................................... (-20.10 = -20.70 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:17 2006