Locus 2329

Sequence ID X_DroMel_CAF1
Location 6,259,773 – 6,259,888
Length 115
Max. P 0.973126
window3779

overview

Window 9

Location 6,259,773 – 6,259,888
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.65
Mean single sequence MFE -37.12
Consensus MFE -29.52
Energy contribution -29.15
Covariance contribution -0.37
Combinations/Pair 1.13
Mean z-score -2.77
Structure conservation index 0.80
SVM decision value 1.71
SVM RNA-class probability 0.973126
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6259773 115 - 22224390
GGAGAAUGUGCGGGGCUAAGGUGUGUCCAAUCUGCUGUUUUUGGCAGAUGUUCUUGGCCUCGCAAGGCGUUCUUUCC----UUUUCAGUUUCAGUUCGCAGUUUCAGUUUUGC-AAAUUU
(((((((((((((((((((((........(((((((......)))))))..))))))))))))...))))))..)))----................((((........))))-...... ( -39.20)
>DroSec_CAF1 1404 108 - 1
GGGGAAAGUGUGGGG-UAAGGUGUGUCCAAUCUGCUGUUUUUGGCAGAUGUUCUUGGCCUCGAAUGGCGUUCCUUCU----UUUUCA------GUUUGCAGUUUCAGUUUUGC-AAAUUU
.(..((((...((..-(..((.....)).(((((((......))))))).......(((......))))..))..))----))..)(------((((((((........))))-))))). ( -32.60)
>DroSim_CAF1 1395 109 - 1
GGGGAAACUGCGGGGCUAAGGUGUGUCCAAUCUGCUGUUUUUGGCAGAUGUUCUUGGCCUCGAAUGGCGUUCCUUCU----UUUUCA------GUUCGCAGUUUCAGUUUUGC-AAAUUU
...((((((((((((((((((........(((((((......)))))))..))))))))))(((.((....))))).----......------....))))))))........-...... ( -37.70)
>DroYak_CAF1 957 114 - 1
GGGGAAAGUCUGGGGCUAAGGUGUGUCCAAUCUGCUGUUUUUGGCAGAUGUUCUUGGCCUCGAAAGGCAUUCUCUUUUCUCUUUUCA------GUUCGCAGUUUCAGUUUUGCGAAAUUU
((((((.((((((((((((((........(((((((......)))))))..))))))))))...)))).))))))............------.(((((((........))))))).... ( -39.00)
>consensus
GGGGAAAGUGCGGGGCUAAGGUGUGUCCAAUCUGCUGUUUUUGGCAGAUGUUCUUGGCCUCGAAAGGCGUUCCUUCU____UUUUCA______GUUCGCAGUUUCAGUUUUGC_AAAUUU
((((((.((.(((((((((((........(((((((......)))))))..)))))))))))....)).))))))......................((((........))))....... (-29.52 = -29.15 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:45 2006