Locus 1642

Sequence ID X_DroMel_CAF1
Location 4,661,753 – 4,661,863
Length 110
Max. P 0.837822
window2694

overview

Window 4

Location 4,661,753 – 4,661,863
Length 110
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 87.87
Mean single sequence MFE -28.26
Consensus MFE -22.43
Energy contribution -22.50
Covariance contribution 0.06
Combinations/Pair 1.16
Mean z-score -1.90
Structure conservation index 0.79
SVM decision value 0.74
SVM RNA-class probability 0.837822
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4661753 110 + 22224390
GAAAACGCGAACUAAAGUGCGGCAGAGUAAUGCUCUUAGACCGAAAGGUUUUCAAAAGCGUUCGAAAAAAAAACAUGCCGAACGGAAAGCGUA----------CGCCAAAUUGAGCUAAA
....((((........((.(((((..((((((((...(((((....))))).....))))))..........)).))))).)).....)))).----------.(((.....).)).... ( -26.02)
>DroSec_CAF1 23116 108 + 1
GAAAACGCGAACCAAAGUGCGGCAGAGUAAUGCUCUUAGACCGAAAGGUUUUCAAAAGCGUUCGAAAA--AAGCUUGCCGAACGGAAAGUGUA----------CGCCAAAUGGAGCUAAA
......((...(((..((.(((((.(((((((((...(((((....))))).....))))))......--..)))))))).))((...(....----------).))...))).)).... ( -28.20)
>DroSim_CAF1 12070 108 + 1
GAAAACGCGAACCAAAGUGCGGCAGAGUAAUGCUCUUAGACCGAAAGGUUUUCAAAAGCGUUCGAAAA--AAGCGUGCCGAACGGAAAGUGUA----------CGCCAAAUGGAGCUAAA
......((...(((..((.(((((..((((((((...(((((....))))).....))))))......--..)).))))).))((...(....----------).))...))).)).... ( -27.40)
>DroYak_CAF1 20187 118 + 1
GAAAGCGCCAAGCGAAGUGCGGCAGCGUAAUGCUCUUAGACCGAAAGGUUUUCAAAAGCGUUCGAAAA--AUGCGUGCUGAACGAAAAGUGGAACGUGGAAAGCGCCAAAUGGAACUAAA
...((..(((.((.....))(((.((............((((....))))(((....((((((.(...--...(((.....))).....).)))))).))).)))))...)))..))... ( -31.40)
>consensus
GAAAACGCGAACCAAAGUGCGGCAGAGUAAUGCUCUUAGACCGAAAGGUUUUCAAAAGCGUUCGAAAA__AAGCGUGCCGAACGGAAAGUGUA__________CGCCAAAUGGAGCUAAA
....((((........((.(((((.(((((((((...(((((....))))).....))))))..........)))))))).)).....))))............................ (-22.43 = -22.50 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:29 2006