Locus 1129

Sequence ID X_DroMel_CAF1
Location 3,341,986 – 3,342,097
Length 111
Max. P 0.581126
window1815

overview

Window 5

Location 3,341,986 – 3,342,097
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.34
Mean single sequence MFE -39.42
Consensus MFE -16.69
Energy contribution -17.65
Covariance contribution 0.96
Combinations/Pair 1.36
Mean z-score -1.80
Structure conservation index 0.42
SVM decision value 0.10
SVM RNA-class probability 0.581126
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3341986 111 + 22224390
AAUCGCUGCCAUGAAAAAGGGCAAGGGAUCAAGCUCCCUUGGAUCGAAGGAAUC---AUCGGGGAGACCAUCCACGGCAG------UCCUGGUGUUCAAGAAGUGCGCUAGAUUUGCGGA
......((((.........))))..((((....(((((((((.((....)).))---)..))))))...)))).(.((((------..(((((((.(.....).)))))))..)))).). ( -37.40)
>DroSec_CAF1 19514 111 + 1
AAUCGCUACCAUGAAAAAGGGUAAGGGAUCAAGAUCCCUUGGAUCGAAGGAAUC---AUCUGGGAGACCAUCCUCGUCAG------UCCUGGUGUCCAAGGAGUGCGCGAGACUUGCGGA
..((((....((((.......((((((((....))))))))..((....)).))---)).(((....)))..(((((((.------((((((...)).)))).)).)))))....)))). ( -37.40)
>DroSim_CAF1 21357 111 + 1
AAUCGCUACCAUGAAAAAGGGCAAGGGAUCAAGCUCCCUUGGAUCGAAGGAAUC---AUCUGGGAGACCAUCCUCGUCAG------UCCUGGUGUCCAAGGAGUGCGCGAGACUUGCGGA
........((.(....).))(((((((((....(((((.(((.((....)).))---)...)))))...))))((((((.------((((((...)).)))).)).))))..)))))... ( -37.90)
>DroEre_CAF1 20329 111 + 1
AAUCGCUGCCAUGAAAAAGACCAAGAGUGCAAGCUCCUUGGGAUCAAACGGAUC---ACCCCAGGGACAACCUUCGGAAUCCGCCG------GAUUGACGGAGUCCGCCGGAUUGGCGGA
.....(((((..........((((((((....))).)))))((((.....))))---..((.((((....)))).))((((((.((------((((.....)))))).))))))))))). ( -40.40)
>DroYak_CAF1 20010 117 + 1
AAUCGCUACCAUGAAAAAGACCAAGGGAUCAAGCUCCCUUGGAACGAAGGGAUCAUCAUCCCGGAGACUAUCUUCU---UCGGCUGUGGUGGUGUCCAAGGAGUCUGGGGGAUCUGCGGA
...(((((((((........((((((((......))))))))..(((((((((....)))))((((.....)))))---)))...)))))))))(((..(((..(....)..)))..))) ( -44.00)
>consensus
AAUCGCUACCAUGAAAAAGGGCAAGGGAUCAAGCUCCCUUGGAUCGAAGGAAUC___AUCCGGGAGACCAUCCUCGGCAG______UCCUGGUGUCCAAGGAGUGCGCGAGAUUUGCGGA
...((((.((...........(((((((......))))))).....................(((.((((...................)))).)))..))))))(((((...))))).. (-16.69 = -17.65 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:03 2006