Locus 2279

Sequence ID 2R_DroMel_CAF1
Location 8,400,378 – 8,400,474
Length 96
Max. P 0.505541
window3741

overview

Window 1

Location 8,400,378 – 8,400,474
Length 96
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 81.43
Mean single sequence MFE -33.75
Consensus MFE -21.45
Energy contribution -22.14
Covariance contribution 0.70
Combinations/Pair 1.17
Mean z-score -1.51
Structure conservation index 0.64
SVM decision value -0.06
SVM RNA-class probability 0.505541
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8400378 96 + 20766785
-GGCAACUGC--AGCACACUAGUUGUCCCGCUCCCACCGCGGUCCAAUGACUGCCGUG-CGAGAGAGAUGGC--CCGAUACAAGAAAUUGCCAUUUUGUUUU
-((((((((.--.......))))))))...(((.(((.((((((....)))))).)))-.))).((((((((--...............))))))))..... ( -31.06)
>DroSec_CAF1 11399 96 + 1
-GGCAACUGC--AGCACACUAGUUGUCCCGCUCCCACAGCGGUCCAAUGACUGCCGUG-CGAGGGAGAUGGC--CCGAUACAAGAAAUUGCCAUUUUGUUUU
-((((((((.--.......))))))))((.(((.(((.((((((....)))))).)))-.)))))(((((((--...............)))))))...... ( -32.16)
>DroSim_CAF1 11372 96 + 1
-GGCAACUGC--AGCACACUAGUUGUCCCGCUCCCACAGCGGUCCAAUGACUGCCGUG-CGAGGGAGAUGGC--CCGAUACAAGAAAUUGCCAUUUUGUUUU
-((((((((.--.......))))))))((.(((.(((.((((((....)))))).)))-.)))))(((((((--...............)))))))...... ( -32.16)
>DroEre_CAF1 13586 96 + 1
-GGCAACUGC--AGCACACCAGUUGUCUCGCUCCCACUGCGCGCAGAUGACUGCCGUG-AGAGGGAGAUGGC--CCGAUGCAAGAAAUUGCCAUUUUGUUUU
-((((((((.--.......))))))))...(((((.(((((.((((....))))))).-)).)))))..(((--..(((((((....))).))))..))).. ( -33.80)
>DroYak_CAF1 11521 96 + 1
-GGCAACUGC--CGCACACCAGUCGUCUCGCUCCCGCUGCGGUCAUAUGACUGCCGUG-CGAGGGAGAUGGC--GCGAUGCAAGAAAAUGCCAUUUUGUUUU
-(((....))--)(((.....((((((((.(((.(((.((((((....)))))).)))-.))).))))))))--....)))..................... ( -40.20)
>DroMoj_CAF1 18190 97 + 1
UGGCGAACAGCGCACACACCAGUUGUCUCGCUCUGGCU-CAUGCAUGCGACGGUCGUGGUGAGCGAGACGGCAAUUGCUC---G-AAAUGCCAUUUUGUUUG
(((((....(.(((.......((((((((((((..((.-...))..((.((....)).))))))))))))))...))).)---.-...)))))......... ( -33.10)
>consensus
_GGCAACUGC__AGCACACCAGUUGUCCCGCUCCCACUGCGGUCAAAUGACUGCCGUG_CGAGGGAGAUGGC__CCGAUACAAGAAAUUGCCAUUUUGUUUU
.(((((...............((((((.(.(((..((.((((((....)))))).))...))).).))))))...............))))).......... (-21.45 = -22.14 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:30 2006