Locus 6213

Sequence ID 3L_DroMel_CAF1
Location 16,519,008 – 16,519,100
Length 92
Max. P 0.520589
window9969

overview

Window 9

Location 16,519,008 – 16,519,100
Length 92
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 69.07
Mean single sequence MFE -25.86
Consensus MFE -9.20
Energy contribution -10.92
Covariance contribution 1.72
Combinations/Pair 1.23
Mean z-score -1.72
Structure conservation index 0.36
SVM decision value -0.03
SVM RNA-class probability 0.520589
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16519008 92 - 23771897
UCCAACGGUGAGU---GCUACUCAAGCUUUGUCUUUAAAGUUG-GUU---------------------UGUCACCAGUAAACAGGGAAAUUGAAAAUCAUACUUUUGGGAACUCUUU
.........((((---(((.....)))....(((..(((((((-(((---------------------(.((.((........))))......)))))).)))))..)))))))... ( -16.70)
>DroSec_CAF1 125263 92 - 1
UCCAACAGUGAGU---GCUACUUAAGCUUUGUCUUUAAAGUUGGGUU---------------------UGUCACCAGUAAACUGGGA-AUUGAGUGGCACACUUUUGGGUACUCUUU
(((((.(((..((---(((((((((((((((....))))))).....---------------------..((.((((....))))))-..))))))))))))).)))))........ ( -30.70)
>DroSim_CAF1 135507 92 - 1
UCCAACAGUGAGU---GCUACUUAAGCUUUGUCUUUAAAGUUGGGUU---------------------UGUCACCAGUAAACUGGGA-AUUGAGUGGCAUACUUUUGGGUACUUUUU
(((((.(((..((---(((((((((((((((....))))))).....---------------------..((.((((....))))))-..))))))))))))).)))))........ ( -29.40)
>DroEre_CAF1 128373 112 - 1
UCCAACAAUCAGUGGUUGUACUUUAGCUUAGCCAUUAGAGUUG-CUUAAUUGCAGAUUAACAGGCACUGGUC--CAG-AAACUGAAA-AAUACGUAGCCUGCUUUUGGGCGCUCUUU
..........((((((((..(....)..))))))))(((((.(-(((((..((((..((.(((...(((...--)))-...)))...-......))..))))..))))))))))).. ( -26.80)
>DroYak_CAF1 132834 112 - 1
UCCAACAAUCAGU---CGUACUUCAGCUCAGCCUUUAAAGUAG-CUUAAUUAUAGAUUAGCAAGUACUGGUCUCCAGUAAACUGCUA-AUGGCGUAGUAUACUUUUGGGCACUCUUU
.............---..............((((..((((((.-....(((((..(((((((..((((((...))))))...)))))-))...))))).)))))).))))....... ( -25.70)
>consensus
UCCAACAGUGAGU___GCUACUUAAGCUUUGUCUUUAAAGUUG_GUU_____________________UGUCACCAGUAAACUGGGA_AUUGAGUAGCAUACUUUUGGGCACUCUUU
(((((....((((.....(((((((((((((....))))))................................((((....))))....)))))))....)))))))))........ ( -9.20 = -10.92 +   1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:51 2006