Locus 4515

Sequence ID 3L_DroMel_CAF1
Location 13,009,492 – 13,009,595
Length 103
Max. P 0.888349
window7055

overview

Window 5

Location 13,009,492 – 13,009,595
Length 103
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 75.10
Mean single sequence MFE -35.88
Consensus MFE -23.66
Energy contribution -23.97
Covariance contribution 0.31
Combinations/Pair 1.11
Mean z-score -1.52
Structure conservation index 0.66
SVM decision value 0.95
SVM RNA-class probability 0.888349
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13009492 103 - 23771897
CAGAGGCGCGCCGGCGUCUCGCUCUUGCACUGCUGCGCCGGCGUGGCGUUCUUCAGCGAACGACCUGUUGAGUUGCGAUGCGAUGAGAUUGAUUAAUCAAUCA
..(((((((....)))))))..(((((((.(((.((..(((((.(((((((......))))).))))))).)).))).))))).))((((((....)))))). ( -41.80)
>DroPse_CAF1 3745 88 - 1
CACAGACGCGCCGGUGUAUCGCUCUUGCACUGAUGCGCCGGCGAGGCAUUCUUCAGGGAACGACCUGCGU-----------AAAAGGAAAGACAAACCG----
.....(((((((((((((((((....))...))))))))))).((((.((((....)))).).)))))))-----------..................---- ( -32.50)
>DroSec_CAF1 514 103 - 1
CAGAGGCGCGCCGGCGUCUCGCUCUUGCACUGCUGCGCCGGCGUGGCGUUCUUCAGCGAACGACCUGUUAAGUUGCGAUGCGAUGAGAUUGAUUAAUCAAUCA
(((.(.(((((((((((...((.........)).))))))))))).)((((......))))...)))....(((((...)))))..((((((....)))))). ( -39.50)
>DroSim_CAF1 539 103 - 1
CAGAGGCGCGCCGGCGUCUCGCUCUUGCACUGCUGCGCCGGCGUGGCGUUCUUCAGCGAACGACCUGUUAAGUUGCGAUGCGAUGAGAUUGAUUAAUCAAUCA
(((.(.(((((((((((...((.........)).))))))))))).)((((......))))...)))....(((((...)))))..((((((....)))))). ( -39.50)
>DroAna_CAF1 1392 81 - 1
CAGAGCCUGGCCGGCGUCUCACUCUUGCACUGGUGCGCCGGCGUGGCGUUCUUCAGCGAGCGACCUGAC-----------------GAUUAA----UCAAUC-
(((.(((..((((((((..((.........))..))))))))..)))((((......))))...)))..-----------------......----......- ( -29.50)
>DroPer_CAF1 6418 88 - 1
CACAGACGCGCCGGUGUAUCGCUCUUGCACUGAUGCGCCGGCGAGGCAUUCUUCAGGGAACGACCUGCGU-----------AAAAGGAAAGACAAACCG----
.....(((((((((((((((((....))...))))))))))).((((.((((....)))).).)))))))-----------..................---- ( -32.50)
>consensus
CAGAGGCGCGCCGGCGUCUCGCUCUUGCACUGCUGCGCCGGCGUGGCGUUCUUCAGCGAACGACCUGUUA___________GAUGAGAUUGAUUAAUCAAUC_
........(((((((((...((....))......))))))))).(((((((......))))).))...................................... (-23.66 = -23.97 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:29 2006