Locus 3895

Sequence ID 3R_DroMel_CAF1
Location 10,604,118 – 10,604,226
Length 108
Max. P 0.739939
window6240

overview

Window 0

Location 10,604,118 – 10,604,226
Length 108
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 88.99
Mean single sequence MFE -24.82
Consensus MFE -20.61
Energy contribution -21.03
Covariance contribution 0.42
Combinations/Pair 1.27
Mean z-score -2.05
Structure conservation index 0.83
SVM decision value 0.45
SVM RNA-class probability 0.739939
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10604118 108 + 27905053
GUUGCACUUAAGGCGCCUAUACAUUUGCCGCAAUCAAAUAAUAGCCUUAAUAAAUUUGCUUAAAUUCGCCAUAAGUGCCAACGAUUUGCUCUGCGAAUCCUGUCUAAA
((((((((((.(((((..........)).((((......................))))........))).)))))).))))(((((((...)))))))......... ( -24.45)
>DroSec_CAF1 52194 108 + 1
GUUGCACUUAAGGCGCCUAAACAUUUGCCGCAAUGAAAUAAUUGCCUUAAUAAAUUUGCUUAAAUUCGCCAUAAGUGCCAGCGAUUUGCACUGCCAGUCCUGUCUAAA
...(((((((.((((..............(((((......))))).......(((((....))))))))).)))))))(((.((((.((...)).)))))))...... ( -25.20)
>DroSim_CAF1 53234 108 + 1
GUUGCACUUAAGGCGCCUAAACAUUUGCCGCAAUCAAAUAAUUGCCUUAAUAAAUUUGCUUAAAUUCGCCAUAAGUGCCAGCGAUUUGCACUGCGAGUCCUGUCUAAA
...(((((((.((((..............(((((......))))).......(((((....))))))))).)))))))(((.(((((((...))))))))))...... ( -27.80)
>DroEre_CAF1 63004 107 + 1
GUUGCACUUAAGGCGCCUAAACAUUUGCCGCAAUCAAAUAAUUGCCAUAAUAAAUUUGCUUAAAUUCGCCAUAAGUGCCAGCGAUUUGCUCU-CAAGUCCUGUCCAAA
...(((((((.((((..............(((((......))))).......(((((....))))))))).)))))))(((.((((((....-)))))))))...... ( -25.30)
>DroYak_CAF1 64234 107 + 1
GUUGCACUUGAGGCGCCCAAACAUUUGCCGCAAUCAAAUAAUUGCCUUAAUAAAUUUGCUUAAAUUCGCCAUAAGUGCCAGCGAUUUGCACU-CGAGUCCUGUCUAAA
...(((((((.((((..(((....)))..(((((......))))).....................)))).)))))))(((.((((((....-)))))))))...... ( -24.80)
>DroAna_CAF1 48798 100 + 1
-------CGAAGGCGCCUAAACAUAUGCCGCAAUCAAAUAAUUGCCUUAAUAAAUUUGCUUGAAUUCGUUUCAAGUGCUAGCGAUUUUCAGC-AAAGUCCUGCCUAAA
-------...((((...............(((((......))))).........((((((.(((.(((((.........))))).))).)))-))).....))))... ( -21.40)
>consensus
GUUGCACUUAAGGCGCCUAAACAUUUGCCGCAAUCAAAUAAUUGCCUUAAUAAAUUUGCUUAAAUUCGCCAUAAGUGCCAGCGAUUUGCACU_CGAGUCCUGUCUAAA
...(((((((.((((..............(((((......))))).......(((((....))))))))).)))))))(((.((((((.....)))))))))...... (-20.61 = -21.03 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:46 2006