Locus 6378

Sequence ID 3L_DroMel_CAF1
Location 17,072,854 – 17,072,947
Length 93
Max. P 0.517759
window10218

overview

Window 8

Location 17,072,854 – 17,072,947
Length 93
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 84.85
Mean single sequence MFE -13.17
Consensus MFE -9.95
Energy contribution -10.48
Covariance contribution 0.53
Combinations/Pair 1.06
Mean z-score -1.81
Structure conservation index 0.76
SVM decision value -0.03
SVM RNA-class probability 0.517759
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17072854 93 + 23771897
AUGGGAAAAA-AAUAAGAGAAAUGCAGAAAAAAGGAAACUGCGAGCGAACCAACGAACAUUGAAUGAAUGUGAAUGUAAUCGUUUUGCAAAUGA
..........-...........((((((....((....))....((((........(((((.....)))))........))))))))))..... ( -13.69)
>DroSec_CAF1 30996 92 + 1
GUGGAAA-AA-AAGAAGCGAAAUGCAGAAAAAAGGAAACUGCGAGCGAACCAACGAACAUUGAAUGAAUGUGAAUGUAAUCGUUUUGCAAAUGA
.......-..-.....(((((.(((((...........))))).((((........(((((.....)))))........)))))))))...... ( -14.19)
>DroSim_CAF1 31877 93 + 1
AUGGAAAAAA-AAGAAGCGAAAUGCAGAAAAAAGGAAACUGCGAGCGAACCAACGAACAUUGAAUGAAUGUGAAUGUAAUCGUUUUGCAAAUGA
..........-.....(((((.(((((...........))))).((((........(((((.....)))))........)))))))))...... ( -14.19)
>DroEre_CAF1 30672 87 + 1
-------AAAAAAAAAAGAAAAUGCAGAAAAAAGGAAACUGCGAGCGAACCAACGAACAUUGAAUGAAUGUGAAUGUAAUCGUUUUGCAAAUGA
-------...............((((((....((....))....((((........(((((.....)))))........))))))))))..... ( -13.69)
>DroWil_CAF1 38165 73 + 1
GAGGAAAA-----------AAAUG------AAGGAAAACUGC----GAACCAACGAACAUUGAAUGAAUGUGAAUGUAAUCGUUUUGCAAAUGA
........-----------.....------.........(((----(((...(((((((((.(.......).)))))..))))))))))..... (  -9.60)
>DroYak_CAF1 32859 86 + 1
-------AAA-AAGAAGGAAAAUGCAGAAAAAAGGAAACUGCGAGCGAACCAACGAACAUUGAAUGAAUGUGAAUGUAAUCGUUUUGCAAAUGA
-------...-...........((((((....((....))....((((........(((((.....)))))........))))))))))..... ( -13.69)
>consensus
_UGGAAAAAA_AAGAAGCGAAAUGCAGAAAAAAGGAAACUGCGAGCGAACCAACGAACAUUGAAUGAAUGUGAAUGUAAUCGUUUUGCAAAUGA
......................((((((....((....))............(((((((((.(.......).)))))..))))))))))..... ( -9.95 = -10.48 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:56 2006