Locus 4304

Sequence ID 2L_DroMel_CAF1
Location 12,305,769 – 12,305,859
Length 90
Max. P 0.892078
window6787

overview

Window 7

Location 12,305,769 – 12,305,859
Length 90
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 76.27
Mean single sequence MFE -18.20
Consensus MFE -9.60
Energy contribution -10.40
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.04
Structure conservation index 0.53
SVM decision value 0.97
SVM RNA-class probability 0.892078
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12305769 90 + 22407834
-CCAAUGCCUGGGAGAGAUGUAGCAAAAAUCAAUAAGAUCAAUCAUCUUGUAUGCUCCUCUUUUGCUCCUCUUGCUCCCCUUUUGCUCCCC
-.....((..((((((((.(.(((((((..(((((((((.....))))))).))......)))))))).)))..))))).....))..... ( -18.60)
>DroSec_CAF1 128425 79 + 1
-CCAAUGCCUGGGAGAGAUGUAGCAAAAAUCAAUAAGAUCAAUCAUCUUGUAUGCUCC-----------UCCUGCUCCUCAUCUGCUCCCC
-.........((((((((((.((((.....(((((((((.....))))))).))....-----------...))))...))))).))))). ( -21.30)
>DroSim_CAF1 132093 79 + 1
-CCAAUGCCUGGGAGAGAUGUAGCAAAAAUCAAUAAGAUCAAUCAUCUUGUAUGCUCC-----------UCCUGCUCCUCAUCUGCUCCCC
-.........((((((((((.((((.....(((((((((.....))))))).))....-----------...))))...))))).))))). ( -21.30)
>DroYak_CAF1 132951 86 + 1
-CCAAUGCCUGGGAGAGAUGUAGCAAAAAUCAAUAAGAUCAAUCAUCCUGCAUGCUGCUCCACUGCUCCAC-UGC---UCCACUGCUCCCC
-.........(((((((.((.((((...(((.....))).............((..((......))..)).-)))---).)))).))))). ( -16.80)
>DroAna_CAF1 117277 82 + 1
GCAAAUGCCCAGGAGAGACGGACCAAAAAUCAAUAAGAUCAAUCAUCUUGUAUAUUUCACUUUGGCUACAU--------ACGCUGCUCCC-
((....))...((((((.((..((((((((..(((((((.....)))))))..)))....)))))......--------.)))).)))).- ( -13.00)
>consensus
_CCAAUGCCUGGGAGAGAUGUAGCAAAAAUCAAUAAGAUCAAUCAUCUUGUAUGCUCC_C____GCU_CUC_UGCUCCUCAUCUGCUCCCC
..........(((((.(((.........))).(((((((.....)))))))..................................))))). ( -9.60 = -10.40 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:38 2006