Locus 5885

Sequence ID X_DroMel_CAF1
Location 15,157,050 – 15,157,170
Length 120
Max. P 0.957417
window9557

overview

Window 7

Location 15,157,050 – 15,157,170
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 81.67
Mean single sequence MFE -41.33
Consensus MFE -29.58
Energy contribution -32.95
Covariance contribution 3.37
Combinations/Pair 1.03
Mean z-score -2.28
Structure conservation index 0.72
SVM decision value 1.48
SVM RNA-class probability 0.957417
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15157050 120 + 22224390
GAGCAAUUUGGCCCACUCACUGCGCACGGGUUAUUCGCGGUGAAAGGCCUUUGGAACAGAUGGCACUGGCUCUCCCGCAGCCAAGUACUUGAUUAUAUCAAGGCAAAGCCACGCUCGAUC
((((.....((((...((((((((...........))))))))..))))...........((((((((((((....).)))).))).((((((...)))))).....)))).)))).... ( -42.00)
>DroSec_CAF1 8030 115 + 1
-AGCAACUUGGCCUACUCACUGCGAAAAGGUUAUUCGCGGUGAAAGGCCUUUGGAACAGGUGGCGCUGGCUCUCCCGCAGCCAAGUACUUGAUUAUAUCGAGGCGAAGCAACGCU----C
-(((..((.(((((..((((((((((.......)))))))))).)))))...)).....((..(((((((((....).)))))....((((((...)))))))))..))...)))----. ( -42.80)
>DroSim_CAF1 8062 120 + 1
GAGCAACUUGGCCCACUCACUGCGAAAAGGUUAUUCGCGGUGAAAGGCCUUUGGAACAGGUGGCGCUGGCUCAUCCGCAGCCAAGUACUUGAUUAUAUCGAGGCGAAGCCACGCUCGAUC
((((..((.((((...((((((((((.......))))))))))..))))...)).....(((((((((((((....).)))).))).((((((...)))))).....))))))))).... ( -50.00)
>DroYak_CAF1 7565 101 + 1
GAGUAACUCAGC----UCACUGC--AAAGGUUAUUCCCGGUGAAAGGCCUUUGGAACAGGUAGCGCUGGC-----------AAAUUACUUGAUUAUAUCAAGACGAUGCCAC--UCGAUC
((((......((----(..((((--((((((..(((.....)))..)))))))...)))..)))...(((-----------(.....((((((...))))))....))))))--)).... ( -30.50)
>consensus
GAGCAACUUGGCCCACUCACUGCGAAAAGGUUAUUCGCGGUGAAAGGCCUUUGGAACAGGUGGCGCUGGCUCUCCCGCAGCCAAGUACUUGAUUAUAUCAAGGCGAAGCCACGCUCGAUC
((((.....((((...((((((((((.......))))))))))..))))..........(((((..(((((.......)))))....((((((...)))))).....))))))))).... (-29.58 = -32.95 +   3.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:51 2006