Locus 5616

Sequence ID 3L_DroMel_CAF1
Location 15,403,627 – 15,403,734
Length 107
Max. P 0.621896
window8874

overview

Window 4

Location 15,403,627 – 15,403,734
Length 107
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 91.56
Mean single sequence MFE -29.96
Consensus MFE -21.82
Energy contribution -22.70
Covariance contribution 0.88
Combinations/Pair 1.07
Mean z-score -1.97
Structure conservation index 0.73
SVM decision value 0.18
SVM RNA-class probability 0.621896
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15403627 107 + 23771897
UGCCACGCCAUUUCGCCAACGCAUGUGGUGCACAUGCAGCUGCCCCUUUUGUUGUUGAACAAACGAACAAAAUGGAGUGCAGGAUGGAAAAAAAAGUGAAAAAAUAG
...(((....(((..(((.((((((((...)))))))..(((((((((((((((((.....))).))))))).)).).))))).)))..)))...)))......... ( -30.40)
>DroSec_CAF1 132543 103 + 1
UGCCACGCCAUUUCGCCAACGCAUG---UGCACAUGCAGCUCCCCCUUUUGUUGUUGAACAAACGAACAAAAUGGAGUGCAGGAUGGAAA-AAAAGUGGAAAAAUAG
..((((.(((((..((....(((((---....))))).(((((...((((((((((.....))).))))))).)))))))..)))))...-....))))........ ( -33.10)
>DroSim_CAF1 134961 102 + 1
UGCCACGCCAUUUCGCCAACGCAUG---UGCACAUGCAGCUGCCCCUUUUGUUGUUGAACAAACGAACAAAAUGGAGUGCAGGAUGGAAA--AAAGUGGGAAAAUAG
..((((.(((((........(((((---....)))))..(((((((((((((((((.....))).))))))).)).).)))))))))...--...))))........ ( -31.60)
>DroEre_CAF1 133614 102 + 1
UGCCAGGUCCUUUCGCCCACGCAUG---UGCAAAUGCAGCUGGCCCUUUUGUUGUUGAACAAGCGAACAAAAUGGAGUGCAGGAUGGAAA--AAAGUGGCAAAAUAG
(((((..(..(((((.((..((((.---.....)))).((...((.((((((((((.....))).))))))).))...)).)).))))).--.)..)))))...... ( -29.80)
>DroYak_CAF1 136873 102 + 1
UGCCACGCCUUUUGGCCAACGCAUG---UGCAAAUGCAGCUGGCCCUUUUGUUGUUGAACAAACGAGCAAAAUGGAGUGCAGGAUGGAAA--AAAGUAGAAAAAUGG
.....(..(((((..(((.(((((.---.....)))).((...((.((((((((((.....))).))))))).))...))..).)))..)--))))..)........ ( -24.90)
>consensus
UGCCACGCCAUUUCGCCAACGCAUG___UGCACAUGCAGCUGCCCCUUUUGUUGUUGAACAAACGAACAAAAUGGAGUGCAGGAUGGAAA__AAAGUGGAAAAAUAG
..((((....(((((((...(((((.......))))).((...((.((((((((((.....))).))))))).))...)).)).)))))......))))........ (-21.82 = -22.70 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:42 2006