Locus 4164

Sequence ID 3L_DroMel_CAF1
Location 12,159,389 – 12,159,480
Length 91
Max. P 0.665073
window6463

overview

Window 3

Location 12,159,389 – 12,159,480
Length 91
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 76.58
Mean single sequence MFE -25.22
Consensus MFE -14.38
Energy contribution -13.99
Covariance contribution -0.39
Combinations/Pair 1.23
Mean z-score -1.62
Structure conservation index 0.57
SVM decision value 0.28
SVM RNA-class probability 0.665073
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12159389 91 - 23771897
AGUGCAAGGCCACGGCAUUGAGUUACGAGUC---U----GAUUGUAAAGGUCGUUGCACGAGGACCCAUGAA---------AUGUAUUGUGGCAAAUGAUAAGAAUA
........(((((.(((((...((((((...---.----..)))))).((((.((....)).)))).....)---------))))...))))).............. ( -23.00)
>DroPse_CAF1 37958 100 - 1
AGUGCAUGGCCACUGCAUUGAAUAACGUGAU---UGAGCGAUUGUUAAGGUCGGUGCGCAAGAGAUCAUUC----CUCGUGUAGAAAUGUAUUAUAUGAGCAGUGUA
.((((((((((.(......)((((((((...---...))).)))))..)))).)))))).......((((.----(((((((((.......))))))))).)))).. ( -25.80)
>DroSec_CAF1 36589 91 - 1
AGUACAAGGCCACGGCAUUGAGUUAUGAGUC---U----GAUUGUAAAGGUCGUUGCACGAGGACCCAUGAA---------AUGCAGUGUGGGAAAUGAUGAGAAUA
.........((((.(((((...(((((.(((---(----...(((((......)))))...)))).))))))---------))))...))))............... ( -21.80)
>DroSim_CAF1 36987 91 - 1
AGUGCAAGGCCACGGCAUUGAGUUACGAGUC---U----GAUUGUAAAGGUCGUUGCACGAGGACCCAUGAA---------AUGCAGUGUGGGAAAUGAUAAGAAUA
.((((((((((...(((.(.((........)---)----.).)))...)))).)))))).....((((((..---------......)))))).............. ( -24.50)
>DroEre_CAF1 33690 100 - 1
AGUGCAAGGCCACGGCAUUGAGUUACGAGAC---U----GAUUGUAAAGGUCGUUGCACGAGGACUCAUGAAUGUAUUGCUUUAAAAUGUUGGAAACGAUAAGAGUA
.((((((((((...(((.(.((((....)))---)----.).)))...)))).))))))....((((.((((.(.....)))))...(((((....))))).)))). ( -29.70)
>DroYak_CAF1 36915 103 - 1
AGUGCAAGGCCACGGCAUUGAGUUACGAGUUACGA----GAUUGCAAAGGUCGUUGCACGAGGACUCUUGAAUGUAUUGCUAUAAAAUGUGGCAAAUGAUAAGAAUA
.((((((((((...(((((..((........))..----)).)))...)))).))))))......(((((......(((((((.....)))))))....)))))... ( -26.50)
>consensus
AGUGCAAGGCCACGGCAUUGAGUUACGAGUC___U____GAUUGUAAAGGUCGUUGCACGAGGACCCAUGAA_________AUGAAAUGUGGGAAAUGAUAAGAAUA
.((((((((((...(((.........................)))...)))).))))))................................................ (-14.38 = -13.99 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:52 2006