Locus 5419

Sequence ID 3R_DroMel_CAF1
Location 14,277,058 – 14,277,150
Length 92
Max. P 0.698075
window8819

overview

Window 9

Location 14,277,058 – 14,277,150
Length 92
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 76.92
Mean single sequence MFE -12.08
Consensus MFE -7.84
Energy contribution -7.84
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.62
Structure conservation index 0.65
SVM decision value 0.34
SVM RNA-class probability 0.698075
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14277058 92 + 27905053
CCCAUAAACGGCAAUUCUCUUGCCGCCAGACAGUUUACAACAUCAGAAACAAUAGCAAAAACAGC---------AAA-AAGUAACAACAGCCA-UAGUUUGGA
........((((((.....))))))((((((.((((.(.......)))))....((.......))---------...-...............-..)))))). ( -16.80)
>DroSec_CAF1 56383 81 + 1
CCCAUAAACGGCAAUUCUCUUGCCGCCAGACAGUUUACAACAUCAGAAACAAUAGCAAAAUCAGC---------AAA-AAGUAACAACAGC------------
........((((((.....))))))....((.((((.(.......)))))....((.......))---------...-..)).........------------ (  -8.80)
>DroSim_CAF1 48079 81 + 1
CCCAUAAACGGCAAUUCUCUUGCCGCCAGACAGUUUACAACAUCAGAAACAAUAGCAAAAACAGC---------AAA-AAGUAACAACAGC------------
........((((((.....))))))....((.((((.(.......)))))....((.......))---------...-..)).........------------ (  -8.80)
>DroEre_CAF1 58491 102 + 1
CCCAUAAACGGCAAUUCUCUUGCCGCCAGACAGUUUACAACAUUAGAAACAAUGGCAAACACAACAAAACCAGCAAAAAAGUAACAACAGCCA-UAGUUAAGA
......((((((((.....)))))((((.....((((......)))).....)))).....................................-..))).... ( -14.40)
>DroAna_CAF1 48287 76 + 1
CCCAUAAACGGCAAUUCUCUUGCCGUCAGCCAGUUUACAACAUUAGAAACAC---------------------------ACUAACAACAGCCACUAGCCAAGA
.......(((((((.....)))))))..((.(((........((((......---------------------------.))))........))).))..... ( -11.59)
>consensus
CCCAUAAACGGCAAUUCUCUUGCCGCCAGACAGUUUACAACAUCAGAAACAAUAGCAAAAACAGC_________AAA_AAGUAACAACAGCCA_UAG____GA
........((((((.....)))))).......((((.(.......)))))..................................................... ( -7.84 =  -7.84 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:13 2006