Locus 7603

Sequence ID X_DroMel_CAF1
Location 18,953,193 – 18,953,305
Length 112
Max. P 0.574720
window12476

overview

Window 6

Location 18,953,193 – 18,953,305
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.07
Mean single sequence MFE -41.52
Consensus MFE -21.41
Energy contribution -23.62
Covariance contribution 2.21
Combinations/Pair 1.05
Mean z-score -1.88
Structure conservation index 0.52
SVM decision value 0.08
SVM RNA-class probability 0.574720
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18953193 112 + 22224390
AAUAAUGAAGCCAGGACCGAAAGGUAGGUGGCCAGGAUGCCGGG--------AUGCCAGGAUUCCGAGGAGGUCCUGCUAACUGCUCUACACACGGGCGGGUGGCACUGACGCAGGAUCA
.........((((..(((....)))...))))..(((..((((.--------...)).))..))).....((((((((...((((((.......))))))((.......)))))))))). ( -40.90)
>DroSec_CAF1 21369 99 + 1
AAUAAUGAAGCCAGGACCGAAAGGUAGGUGGCCAGGAUGCCGGG--------AUGCCAGAAUUCAGAGGAGGUCCUGCUAACUGCUCUACACACGGGC-------------GCAGGAUCA
.........((((..(((....)))...)))).......((.((--------((......))))...)).((((((((.....((((.......))))-------------)))))))). ( -32.90)
>DroSim_CAF1 9862 112 + 1
AAUAAUGAAGCCUGGACCGAAAGGUAGGUGGCCAGGAUGCCGGG--------AUGCCAGGAUUCCGAGGAGGUCCUGCUAACUGCUCUACACACGGGCGGAUGGCACUGCCGCAGGAUCA
......(((.((((((((....)))...((((......))))..--------...))))).)))......((((((((...((((((.......))))))..(((...))))))))))). ( -45.50)
>DroEre_CAF1 22060 120 + 1
AAUAAUGAAGCCAGGACCGAAAGGUAGGUGGCUAGGAUGCCAGGAUGGCAGGAUGGCAGGAUUCCGAGGAGCGCCUGCUGGCUGCGCUACACUCGGAUGGGUGGCACUGGCACAGGAUCA
.....((((((((..(((....)))...)))))....((((((....((((..(((((((.(((....)))..))))))).))))(((((.(......).))))).)))))).....))) ( -49.90)
>DroYak_CAF1 11787 104 + 1
AAUAAUGAAGCCCAGACCGAAAGGCAGGUGGCC----------------AGGAAGGCAGUAUUUCGAGGAGGUCCUGCUGGCUGCGCUACACUUGGUUGGGUGGCACUGUCGCAGGAUCA
.....(((((((..(.((....))).))).(((----------------.....))).....))))....((((((((.(((.(.(((((.((.....))))))).).))))))))))). ( -38.40)
>consensus
AAUAAUGAAGCCAGGACCGAAAGGUAGGUGGCCAGGAUGCCGGG________AUGCCAGGAUUCCGAGGAGGUCCUGCUAACUGCUCUACACACGGGCGGGUGGCACUG_CGCAGGAUCA
.........((((..(((....)))...))))......................................((((((((...((((((.......))))))..(.......))))))))). (-21.41 = -23.62 +   2.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:04 2006