Locus 6351

Sequence ID 3L_DroMel_CAF1
Location 16,993,534 – 16,993,654
Length 120
Max. P 0.623035
window10179

overview

Window 9

Location 16,993,534 – 16,993,654
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.22
Mean single sequence MFE -52.38
Consensus MFE -36.21
Energy contribution -38.35
Covariance contribution 2.14
Combinations/Pair 1.15
Mean z-score -1.67
Structure conservation index 0.69
SVM decision value 0.18
SVM RNA-class probability 0.623035
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16993534 120 + 23771897
GCAGCACGUGCCAGGUAUAAAAUUCUGAAUGCUGGCGAUAAAGUCGCCACUGUUGGUAGCUUGGUGGCCAGUGUUCCGGCGGCUGCAGCUUUGGCUGUGCCUCUGGGCGCUCCGCUCGCG
(((((..(((((..............((((((((((.((.((((..(((....)))..)))).)).))))))))))(((.(((.(((((....)))))))).))))))))...))).)). ( -56.30)
>DroSec_CAF1 3535 120 + 1
GCAACACGGGCUAGGUAUAAACUCCUGAAUGCUGGCGAUAAAGUCGCCACUGUUGGUAGCUUGGUGGCCAGUGUUCCGGCGGCUGCAGCUCUGGCUGUGCCUCUGGGCGCUCCGCUCGCG
((....(((((((((........))))(((((((((.((.((((..(((....)))..)))).)).)))))))))((((.(((.(((((....)))))))).))))..)).)))...)). ( -52.10)
>DroSim_CAF1 618 120 + 1
GCAGCACGUGCUAGGUAUAAAAUCCUGAAUGCUGGCGAUAAAGUCGCCACUGUUGGUAGCUUGGUGGCCAGUGUUCCGGUGGCUGCAGCUCUGGCUGUGCCACUGGGCGCUCCGCUCGCG
(((((..((((((((........)))((((((((((.((.((((..(((....)))..)))).)).))))))))))(((((((.(((((....)))))))))))))))))...))).)). ( -59.60)
>DroEre_CAF1 4240 120 + 1
GCAGCGCGUGCCAGAUAUAAAUUGCUGAAUGCUGGCGAUAAAGUCGCCACUGUGGGUAGCCUGGUUGCCAGUGUUCCGGCGGCUGCAGCGCUGGCGGUGCCUCUGGGCGCUCCCCUCGUU
.((((((..(((.(((....)))((((((((((((((((...((..((......))..))...)))))))))))).)))))))....))))))..((((((....))))))......... ( -52.80)
>DroYak_CAF1 614 120 + 1
GCAGCGCGCGCCAGAUAUAAAUUACUGAAUGCUGGCGAUAAAGUCGCCACUGUGGGUAGCCUGGUGUCCACUGUUCCGGCGGCGGCAGCUCUGGCUGUGCCUCUGGGCGCUCCCCUCGUG
..((((((((((((.......(((((.(....(((((((...)))))))...).))))).)))))))........((((.((((.((((....)))))))).)))))))))......... ( -47.30)
>DroAna_CAF1 723 120 + 1
GCCUCUCAAGGCCGUCAUCGGUUACUCAAUGUUGGAGACAAAGUGGCCACAGUUGGGGGGUUGGUGGCCACGGUUCCCGUUGCUGCCGCCUUGGCAGUUCCAGUGGCUGGUCCUCUCAUA
((((....)))).......(((((((.....(((....)))))))))).....(((((((..(.(((((((((...))(..((((((.....))))))..).))))))).)))))))).. ( -46.20)
>consensus
GCAGCACGUGCCAGGUAUAAAUUACUGAAUGCUGGCGAUAAAGUCGCCACUGUUGGUAGCUUGGUGGCCAGUGUUCCGGCGGCUGCAGCUCUGGCUGUGCCUCUGGGCGCUCCGCUCGCG
.......(((((..............((((((((((.((.((((..((......))..)))).)).))))))))))(((.(((.(((((....)))))))).)))))))).......... (-36.21 = -38.35 +   2.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:18 2006