Locus 4065

Sequence ID X_DroMel_CAF1
Location 10,762,047 – 10,762,164
Length 117
Max. P 0.638346
window6679

overview

Window 9

Location 10,762,047 – 10,762,164
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 79.14
Mean single sequence MFE -49.93
Consensus MFE -28.09
Energy contribution -30.28
Covariance contribution 2.20
Combinations/Pair 1.06
Mean z-score -1.81
Structure conservation index 0.56
SVM decision value 0.22
SVM RNA-class probability 0.638346
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10762047 117 - 22224390
CCGCUCGAGGAGCUCGACACGGAGCUGCUCGGCGAGAAGCUCUUCUCGCCAUUGACGAACUUGUGAGCUUGUCCAGAACCAGGCACCGGAUUGGGAUUCUCCUCGCCGGCGGGACUG
(((((((((((((((((..(((.(((..((((((((((....))))))))...(((((.((....)).)))))..))....))).)))..)))))...)))))))..)))))..... ( -52.80)
>DroVir_CAF1 11495 102 - 1
CCGCUGGACGAGCUUGAGACGGAGCUGCUGGGCGAGAAGCUCUUCUCGCCGUUCAUGAACUUGGGCGC---------------CAGCGUAUUGGGAUUCUCCUCGCCGGCGGGACUG
(((((((.((((...(((((.((..(((((((((((((....)))))))((((((......)))))))---------------)))))..)).)...)))))))))))))))..... ( -48.40)
>DroPse_CAF1 27851 117 - 1
CCGCUCGAGGAGCUGGAAACCGAGCUGCUGGGCGAGAAACUCUUCUCGCCGUUCAUGAACUUCUGGCCAGCGGCGGAGCUGGGCGCAGGAUUGGGGUUCUCCUCGCCGGCGGGACUG
((((((((((((...((..((((.((((..((((((((....))))))))..............(.(((((......))))).)))))..))))..)))))))))..)))))..... ( -56.50)
>DroGri_CAF1 11367 102 - 1
CCGCUGGACGAGCUGGAAACGGAGCUGCUGGGCGAGAAGCUCUUCUCGCCAUUCAUAAACUUGGGCGC---------------CAGCGUAUUGGGAUUCUCCUCGCCGGCAGGACUA
(((((((.((((..(((..(.((..(((((((((((((....)))))))).((((......))))...---------------)))))..)).)..)))..))))))))).)).... ( -42.50)
>DroAna_CAF1 20055 117 - 1
CCACUCGAGGAGCUGGACACAGAGCUGCUCGGCGAGAAGCUUUUCUCGCCAUUCAUAAACUUUUGCCCUGCACCCGAUCCCGGCACUGGGUUGGGAUUCUCCUCGCCAGCAGGACUG
......(((.((((........)))).)))((((((((....))))))))................(((((..(((....))).....(((.(((.....))).))).))))).... ( -42.90)
>DroPer_CAF1 20476 117 - 1
CCGCUCGAGGAGCUGGAAACCGAGCUGCUGGGCGAGAAACUCUUCUCGCCGUUCAUGAACUUCUGGCCAGCGGCGGAGCUGGGCGCAGGAUUGGGGUUCUCCUCGCCGGCGGGACUG
((((((((((((...((..((((.((((..((((((((....))))))))..............(.(((((......))))).)))))..))))..)))))))))..)))))..... ( -56.50)
>consensus
CCGCUCGAGGAGCUGGAAACGGAGCUGCUGGGCGAGAAGCUCUUCUCGCCAUUCAUGAACUUGUGCCC_GC__C_GA_C__GGCACCGGAUUGGGAUUCUCCUCGCCGGCGGGACUG
((((((((((((((.((..(((.(((....((((((((....)))))))).........(....)................))).)))..)).))...)))))))..)))))..... (-28.09 = -30.28 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:28 2006