Locus 4001

Sequence ID 3L_DroMel_CAF1
Location 11,659,394 – 11,659,501
Length 107
Max. P 0.737867
window6234

overview

Window 4

Location 11,659,394 – 11,659,501
Length 107
Sequences 4
Columns 113
Reading direction reverse
Mean pairwise identity 81.54
Mean single sequence MFE -24.43
Consensus MFE -13.94
Energy contribution -15.62
Covariance contribution 1.69
Combinations/Pair 1.21
Mean z-score -2.24
Structure conservation index 0.57
SVM decision value 0.44
SVM RNA-class probability 0.737867
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11659394 107 - 23771897
UACUAAUACGAAUAUCAGU-----AACAUCUGAUGUUUUAACUAACCAAAA-AUGAAUUGUGUCAGCCAAUUCUGGCAAUUGACACCAGAUUGGAAAUUGUAUUAUUUUGUUU
...(((((((((((((((.-----.....))))))))).......((((..-.((....((((((((((....))))...))))))))..)))).....))))))........ ( -27.20)
>DroSec_CAF1 33597 109 - 1
UACU---ACGAAUAUCAGUGGGAUAAAAUCUUAUGUUUUAACUACCCAAAA-AUGAAUGGUGUCAGCCAAUUCUGGCAAUUGACACCAGAUUGGAAAUUGUAUUAUUGUGUUU
...(---((((...(((.((((.((((((.....))))))....))))...-.))).((((((((((((....))))...)))))))).........)))))........... ( -26.50)
>DroSim_CAF1 34557 109 - 1
UACU---ACGAAUAUCAGUGGGAUAAAAUCUUAUGUUUUAACUACCCAAAA-AUGAAUGGUGUCAGCCAAUUCUGGCAAUUGACACCAGAUUGGAAAUUGUAUUAUUGUGUUU
...(---((((...(((.((((.((((((.....))))))....))))...-.))).((((((((((((....))))...)))))))).........)))))........... ( -26.50)
>DroYak_CAF1 34756 99 - 1
UACU---AAACAUAUU-----------UUCCAUUACUUUAACCAACCGAAAAUUGAAAUGUGUCAGCCAAUUCUGGCAAUUGAAGUCAGAUUGGAAAUCGUAUUCUUGUGUUU
....---(((((((.(-----------(((((..(((((((............(((......)))((((....))))..))))))).....)))))).........))))))) ( -17.50)
>consensus
UACU___ACGAAUAUCAGU_____AAAAUCUUAUGUUUUAACUAACCAAAA_AUGAAUGGUGUCAGCCAAUUCUGGCAAUUGACACCAGAUUGGAAAUUGUAUUAUUGUGUUU
(((......(((((((((...........))))))))).......((((........((((((((((((....))))...))))))))..)))).....)))........... (-13.94 = -15.62 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:06 2006