Locus 8555

Sequence ID 3R_DroMel_CAF1
Location 22,857,337 – 22,857,455
Length 118
Max. P 0.700720
window13747

overview

Window 7

Location 22,857,337 – 22,857,455
Length 118
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 90.46
Mean single sequence MFE -38.96
Consensus MFE -32.94
Energy contribution -33.58
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -1.41
Structure conservation index 0.85
SVM decision value 0.35
SVM RNA-class probability 0.700720
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22857337 118 + 27905053
UUUUUCGCUCCGAACAGCCGGAGAAAAAUCUGGGGUCAAUGGGGAGCAAGCGUGGCAAGGCUGGCUUCCUGCUCCUCACUGUUGAUUUUAUACCCUAGCAAAGGGGUAAUCGCACAUU
..(((..(((((......)))))..)))..(((((((((((((((((((((.((((...)))))))...)))))))))...)))))))))((((((......)))))).......... ( -39.40)
>DroSec_CAF1 3585 117 + 1
UUUUUCGCUCCGAACAGCCAAAGAAAAAUCUGGGGUCAAUGGGGAGCAAGCGUGGCAAGGCUGGCUUCCUGCUCCUCACUGUUGAUUUCAUACCCUAGCA-GGGGGUAAUCGCACAUU
(((((.(((......))).)))))......((..(((((((((((((((((.((((...)))))))...)))))))))...)))))..))((((((....-.)))))).......... ( -37.40)
>DroSim_CAF1 3616 111 + 1
AUUUUCGCUCCGAACAGCCGAAGAAAAAUCUGGGGUCAAUGGGGAGCAAGCGUGGCAAGGCUGGCUUCCUGCUCCUCACUGUUGAUUUUAUACCCUAGCA-GGGGGUAAUCU------
.((((((((......)).))))))......(((((((((((((((((((((.((((...)))))))...)))))))))...)))))))))((((((....-.))))))....------ ( -35.80)
>DroEre_CAF1 3607 116 + 1
UUUCUUGCUCCCAACAGCCGGAGAAAAAUCUGGGGUCAAUGGGGAGCAAGCGUGCC-AGGCUGGCUUCCUGCUCCUCACUGUUGAUGGUAUACCCUAGCA-GUGGGUAAUCUCACAUU
.....((((..(((((((((((......)))))......(((((((((.(...(((-.....)))..).)))))))))))))))..))))(((((.....-..))))).......... ( -42.80)
>DroYak_CAF1 3455 117 + 1
UUUCUUGCUUCCAACAGCCGGAGAAAAAUCUGGGGUCAAUGGGGAGCAAGCGUGGCAAGGCUGGCUUCCUGCUCCUCACUGUUGAUUUAAUACCCUGGCA-GGGGGUAAACUUACAUU
...........(((((((((((......)))))......((((((((((((.((((...)))))))...)))))))))))))))......((((((....-.)))))).......... ( -39.40)
>consensus
UUUUUCGCUCCGAACAGCCGGAGAAAAAUCUGGGGUCAAUGGGGAGCAAGCGUGGCAAGGCUGGCUUCCUGCUCCUCACUGUUGAUUUUAUACCCUAGCA_GGGGGUAAUCUCACAUU
............((((((((((......)))))......((((((((((((.((((...)))))))...)))))))))))))).......((((((......)))))).......... (-32.94 = -33.58 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:00 2006