Locus 3614

Sequence ID 2R_DroMel_CAF1
Location 11,997,560 – 11,997,658
Length 98
Max. P 0.706590
window5886

overview

Window 6

Location 11,997,560 – 11,997,658
Length 98
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 86.61
Mean single sequence MFE -27.63
Consensus MFE -22.92
Energy contribution -23.03
Covariance contribution 0.11
Combinations/Pair 1.12
Mean z-score -1.93
Structure conservation index 0.83
SVM decision value 0.36
SVM RNA-class probability 0.706590
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11997560 98 + 20766785
C---GGCACUGACUCCUGUAACUGAUAUUGCAGUUAAGGCGGUAACGAGUCUGCCGCCCAAGGAGCACAAAAAAAAAAA--------GAAAUCGACCACUCCUGCUGCU------
(---((((.((.(((((.((((((......)))))).(((((((.......)))))))..)))))))............--------(....).........)))))..------ ( -27.40)
>DroSec_CAF1 52698 95 + 1
C---AGCACUGACUCCUGUAACUGAUAUUGCAGUUAAGGCGGUAACGAGUCUGCCGCCCAAGGAGCA------AAAAAA--------CAAAUCGACCACUCCUGCUGCU---GCU
(---((((.((.(((((.((((((......)))))).(((((((.......)))))))..)))))))------......--------......((....)).)))))..---... ( -28.10)
>DroSim_CAF1 52250 95 + 1
C---AGCACUGACUCCUGUAACUGAUAUUGCAGUUAAGGCGGUAACGAGUCUGCCGCCCAAGGAGCA------AAAAAA--------CAAAUCGACCACUCCUGCUGCU---GCU
(---((((.((.(((((.((((((......)))))).(((((((.......)))))))..)))))))------......--------......((....)).)))))..---... ( -28.10)
>DroEre_CAF1 48895 94 + 1
C---AGCACUGACUCCUGUAACUGAUAUUGCAGUUAAGGCGGUAACGAGUCUGCCGCCCAAGGAGCA------UAAAAA--------CAAAUCGACUACUCCUGCUGCU---GC-
(---((((.((.(((((.((((((......)))))).(((((((.......)))))))..)))))))------......--------......((....)).)))))..---..- ( -27.90)
>DroYak_CAF1 50742 95 + 1
C---AGCACUGACUCCUGUAACUGAUAUUGCAGUUAAGGCGGUAACGAGUCUGCCGCCCAAGGAGCA------AAAAAA--------CAAAUCGAGCACUCCUGCUGCU---ACU
.---(((..((.(((((.((((((......)))))).(((((((.......)))))))..)))))))------......--------.......((((....)))))))---... ( -30.30)
>DroAna_CAF1 51564 109 + 1
UCGGAGCGGUGACUCCUGUAACUGAUAUUGCAGUUAAGGCGGUAACGAGUCUUCUGCCCAAGGACCA------AAAAAAACAAAAACCAAAUCGACCCAUCAUGCCACUGCCACU
..(..((((((..((((.((((((......)))))).(((((...........)))))..))))...------....................((....))....))))))..). ( -24.00)
>consensus
C___AGCACUGACUCCUGUAACUGAUAUUGCAGUUAAGGCGGUAACGAGUCUGCCGCCCAAGGAGCA______AAAAAA________CAAAUCGACCACUCCUGCUGCU___GCU
....((((.((.(((((.((((((......)))))).(((((((.......)))))))..)))))))..........................((....)).))))......... (-22.92 = -23.03 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:56 2006