Locus 3973

Sequence ID X_DroMel_CAF1
Location 10,536,450 – 10,536,543
Length 93
Max. P 0.992551
window6534

overview

Window 4

Location 10,536,450 – 10,536,543
Length 93
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 73.48
Mean single sequence MFE -25.48
Consensus MFE -12.91
Energy contribution -14.60
Covariance contribution 1.69
Combinations/Pair 1.15
Mean z-score -2.71
Structure conservation index 0.51
SVM decision value 2.34
SVM RNA-class probability 0.992551
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10536450 93 + 22224390
UUUUAAAGGGAAUUUCAUAGCUGGUAACCCAAACUUUCCAGCAUUCCCAGACUG-------------------UUUCUGGAGCCUGACUCCGCUCCAGAACUCUGGAACUCU
......((((.........(((((.............)))))....(((((...-------------------.(((((((((........))))))))).)))))..)))) ( -30.62)
>DroSec_CAF1 62878 103 + 1
UUUAAAAAGGAAAUUCAUAGCUGGUAAUCCAAACCAUCCAGCAUUCUUAGACUGUCUGUG-AUAUUUUCACAGUUUCUGGAGCCUGACUCCGCUCUAGAAUU--------CU
........((((.......(((((.............))))).............(((((-(.....)))))).(((((((((........)))))))))))--------)) ( -27.42)
>DroSim_CAF1 66695 102 + 1
U-UAAAAAGGAAAUUCAUAGCUGGUAAUCCAAACCAUCCAGCAUUCUUAGACUGUCUCUG-AUAUUUUCACAGUUUCUGAACCCUGACUCCGCUCCAGAAUU--------CU
.-......((((.(((..(((((((.......))))..(((..(((..(((((((....(-(.....)))))))))..)))..))).....)))...)))))--------)) ( -18.30)
>DroYak_CAF1 65269 111 + 1
A-ACAAAGUGAAUUCCAUAGCUGGUAAUGCAAACUUUGCAGCAUUCUCAGACUUUCUCAGAAUAUUUUCACAGUUCCUGAAGGCUGAAUCCGGUCCAGAACUCUGGAACUCU
.-.....(((((.......((((.(((........)))))))(((((.((.....)).)))))...)))))((((((....(((((....))))).((....)))))))).. ( -25.60)
>consensus
U_UAAAAAGGAAAUUCAUAGCUGGUAAUCCAAACCAUCCAGCAUUCUCAGACUGUCUCUG_AUAUUUUCACAGUUUCUGAAGCCUGACUCCGCUCCAGAACU________CU
.......((((((......(((((.............)))))))))))..........................(((((((((........)))))))))............ (-12.91 = -14.60 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:17 2006