Locus 6172

Sequence ID 2R_DroMel_CAF1
Location 19,416,546 – 19,416,643
Length 97
Max. P 0.532165
window9887

overview

Window 7

Location 19,416,546 – 19,416,643
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.57
Mean single sequence MFE -43.52
Consensus MFE -29.44
Energy contribution -29.96
Covariance contribution 0.52
Combinations/Pair 1.15
Mean z-score -1.38
Structure conservation index 0.68
SVM decision value -0.00
SVM RNA-class probability 0.532165
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19416546 97 + 20766785
UCAGCGCGCGUGUAAUGGCCUCCACCUGGGCCAGCUGCCUCGU--CUGGGUUCGGGAUGAGCCCGAUCUCGCUGAGAGCGC---------------------CACACACAUGCUCGCCUA
...(((.((((((..((((((......))))))((.((((((.--.((((.(((((.....))))).)))).)))).))))---------------------.....)))))).)))... ( -42.10)
>DroSec_CAF1 2875 95 + 1
UCAGUGCGCGGGUAAUGGCCUCCACCUGGGCCAGCUGCCUCGU--CAGGGUUCGGGAUGAGCCCGAUCUCGCUGA--GCGC---------------------CACACACAUGCUCGCCUA
...(((((((((((.((((((......))))))..)))))..(--(((.(.(((((.....)))))...).))))--))).---------------------)))............... ( -38.30)
>DroSim_CAF1 2872 95 + 1
UCAGCGCGCGGGUAAUGGCCUCCACCUGGGCCAGCUGCCUCGU--CUGAGUUCGGGAUGAGCCCGAUCUCGCUGA--GCGC---------------------CACACAAAUGCUCGCCUA
((((((((.(((((.((((((......))))))..))))))))--..(((.(((((.....))))).))))))))--(((.---------------------((......))..)))... ( -39.50)
>DroEre_CAF1 2931 118 + 1
UCAGUGCGCUGGUAAUGGCCCCCACCUGGGCCAUUUGCCUCGGUCCCGGGUUCGGGAUGAGCCCGAUCUCGCUGA--GCGCCCUUCUGCGCGGAUUGAAGGCCACAUAUAUGCUCGCCCA
...(((.((((((((((((((......)))))).)))))(((((((((((.(((((.....))))).))))....--((((......))))))))))).))))))............... ( -51.70)
>DroYak_CAF1 2951 103 + 1
UCAGCGCGCUGCUGGUGGCCAACACCUGGGCCAGCUGACUCGUUCCCGGGUUCGGGAUGAGCCCGAUCUCGCUGA--GCGCCCUCCUGCGCGGAUU---------------GCGCGCCUU
...((((((.((((((..(((.....)))))))))........(((((((.(((((.....))))).))))....--((((......)))))))..---------------))))))... ( -46.00)
>consensus
UCAGCGCGCGGGUAAUGGCCUCCACCUGGGCCAGCUGCCUCGU__CCGGGUUCGGGAUGAGCCCGAUCUCGCUGA__GCGC_____________________CACACACAUGCUCGCCUA
((((((((.(((((.((((((......))))))..))))))))....(((.(((((.....))))).))))))))............................................. (-29.44 = -29.96 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:38 2006