Locus 7975

Sequence ID X_DroMel_CAF1
Location 19,871,807 – 19,871,913
Length 106
Max. P 0.500000
window13083

overview

Window 3

Location 19,871,807 – 19,871,913
Length 106
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 82.60
Mean single sequence MFE -32.45
Consensus MFE -21.19
Energy contribution -21.25
Covariance contribution 0.06
Combinations/Pair 1.19
Mean z-score -1.58
Structure conservation index 0.65
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19871807 106 + 22224390
AUAAUAAGUGAAAAAGUGGCCGACCUGCGGGACAUUUCUCCUGCACUUAAUCUACGUCGAAUGGCCGGGAAAAGAUGGCC--------------AGGGACGUCGAAGGACAUUGCCAACU
................((((...(((((((((......))))))......((.(((((...((((((........)))))--------------)..))))).))))).....))))... ( -34.40)
>DroSec_CAF1 26022 112 + 1
AUAAUAAGUGGAAAAGUGG--------CGGGACAUUUCUCCUGCACUUAAUCUACGUCGAAUGGCCGGGAAAAGAUGGACGAUGAAGAUGAAGAAAGGACGUCGAAGGACAUUGCCAACU
........(((....((.(--------(((((......)))))).(((.((((.(((((.....(((........))).))))).)))).))).....))(((....)))....)))... ( -29.00)
>DroSim_CAF1 17168 106 + 1
AUAAUAAGUGGAAAAGUGGCCGACCUGCGGGACAUUUCUCCUGCACUUAAUCUACGUCGAAUGGCCGGGAAAAGAUGGCC--------------ACGGACGUCGAAGGACAUUGCCAACU
........(((...((((.((....(((((((......))))))).....((.(((((...((((((........)))))--------------)..))))).)).)).)))).)))... ( -35.50)
>DroYak_CAF1 1108 106 + 1
AUAAUGAGUGGCGAAGCAGCAGACCUGCGGCACAUUUCUCCUGCACCUAAUCUGCAUCGAAUGGCUGGGAAAAGAUGGCC--------------AGGAAAGUCGAAGGACAUUGCCAGCU
........((((((.((((.....))))(((.(((((.((((...((...((......))..))..))))..))))))))--------------......(((....))).))))))... ( -30.90)
>consensus
AUAAUAAGUGGAAAAGUGGCCGACCUGCGGGACAUUUCUCCUGCACUUAAUCUACGUCGAAUGGCCGGGAAAAGAUGGCC______________AGGGACGUCGAAGGACAUUGCCAACU
.......(..(....((((......(((((((......)))))))......)))).......(((((........)))))....................(((....))).)..)..... (-21.19 = -21.25 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:08 2006