Locus 7236

Sequence ID 2L_DroMel_CAF1
Location 20,273,269 – 20,273,389
Length 120
Max. P 0.980141
window11582

overview

Window 2

Location 20,273,269 – 20,273,389
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.83
Mean single sequence MFE -33.84
Consensus MFE -32.02
Energy contribution -32.22
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.95
SVM decision value 1.85
SVM RNA-class probability 0.980141
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20273269 120 + 22407834
GACAAAAAAGGACUCCGCACAGUUAUGCAAAUGUAAUUAGUUGCAUGACCGAAACCAUAGAGCAAUAUUUAUGGCGCAGACUGUGCCGAGAAGUGAAAUCGGCCUCUGCUCCGCCGUAAU
............(((.((((((((.(((..((((((....))))))........(((((((......))))))).))))))))))).))).........((((.........)))).... ( -34.50)
>DroSec_CAF1 24116 119 + 1
GACAAA-AAGGACUCCGCACAGUUAUGCAAAUGUAAUUAGUUGCAUGACCGAAACCAUAGAGCAAUAUUUAUGGCACAGACUGUGCCGAGAAGUGAAAUCGGCCUCUGCUCCGCCGUAAU
......-.....(((.((((((((((((((.((....)).))))))........(((((((......)))))))....)))))))).))).........((((.........)))).... ( -32.40)
>DroSim_CAF1 22993 120 + 1
GACAAAAAAGGACUCCGCACAGUUAUGCAAAUGUAAUUAGUUGCAUGACCGAAACCAUAGAGCAAUAUUUAUGGCGCAGACUGUGCCGAGAAGUGAAAUCGGCCUCUGCUCCGCCGUAAU
............(((.((((((((.(((..((((((....))))))........(((((((......))))))).))))))))))).))).........((((.........)))).... ( -34.50)
>DroEre_CAF1 4246 119 + 1
GACAAA-AAGGACUCCGCACAGUUAUGCAAAUGUAAUUAGUUGCAUGACCGAAACCAUAGAGCAAUAUUUAUGGCGCAGACUGUGCCGAGAAGUGAAAUCGGCCUCUGCUCCGCCGUAAU
......-.....(((.((((((((.(((..((((((....))))))........(((((((......))))))).))))))))))).))).........((((.........)))).... ( -34.50)
>DroYak_CAF1 4722 119 + 1
GACAAA-AAGGACUCCGCACAGUUAUGCAAAUGUAAUUAGUUGCAUGACCGAAACCAUAGAGCAAUAUUUAUGGCGCAGACUGUGCCGAGAAGUGAAAUCGGCCUCUGCUCCGCAGUAAU
......-..(((....((.(.(((((((((.((....)).))))))))).)....((((((......))))))))(((((..(.(((((.........))))))))))))))........ ( -33.30)
>consensus
GACAAA_AAGGACUCCGCACAGUUAUGCAAAUGUAAUUAGUUGCAUGACCGAAACCAUAGAGCAAUAUUUAUGGCGCAGACUGUGCCGAGAAGUGAAAUCGGCCUCUGCUCCGCCGUAAU
.........(((....((.(.(((((((((.((....)).))))))))).)....((((((......))))))))(((((..(.(((((.........))))))))))))))........ (-32.02 = -32.22 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:10 2006