Locus 5023

Sequence ID 3R_DroMel_CAF1
Location 13,239,098 – 13,239,203
Length 105
Max. P 0.935131
window8209

overview

Window 9

Location 13,239,098 – 13,239,203
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.78
Mean single sequence MFE -29.69
Consensus MFE -20.38
Energy contribution -21.34
Covariance contribution 0.96
Combinations/Pair 1.19
Mean z-score -2.47
Structure conservation index 0.69
SVM decision value 1.24
SVM RNA-class probability 0.935131
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13239098 105 - 27905053
--------------U-CACUUACUUUCGCCCGUUCGACAAGUGUGAAUGAUCUUCUCGCACUCAUUGCCAAAAUUCCGCACCUGACCCUUAUAAAUCCCACCUGUGGGUUGAUAAACUGC
--------------.-.................(((((.(((((((.........))))))).............(((((..((..............))..))))))))))........ ( -16.64)
>DroSec_CAF1 267830 106 - 1
-------------AC-AACUUACUUUCGCCAGUCCGACAGGUGUGAAUAAACUUUUGGCACUCAUUGCUAAAGUUUCGCACCUGACCCUUAUAAACUCCACUUGUGGGCUGGUAAACUGC
-------------..-...........((((((((..((((((((((...(((((.((((.....)))))))))))))))))))..........((.......))))))))))....... ( -35.60)
>DroSim_CAF1 253255 118 - 1
UAUUUAUGGGGAA--CAACUUACUUUCGCCAGUCCGACAGGUGUGAAUAAACUUUUGGCACGCAUUGCUAAAGUUUCGCACCUGACCCUUAUAAACUCCACUUGUGGGCUGGUAAACUGC
......((((...--...)))).....((((((((..((((((((((...(((((.((((.....)))))))))))))))))))..........((.......))))))))))....... ( -36.50)
>DroEre_CAF1 257452 105 - 1
--------------U-UACUUACUUUCGCCAGUCCGACAGGUGUGAACAAGCUUCUCGCACUCAUUGCUGAAUUUUCGCAGCUGACCCUUAUAAAUUCCACCUGUGGGCUGGUAAACUGC
--------------.-...........((((((((.(((((((.(((...((.....))..(((..((((........)))))))..........))))))))))))))))))....... ( -34.30)
>DroYak_CAF1 268417 105 - 1
--------------C-UACUUACUUUCGCCAGUCCGACAGGUGUGAACAAUUUUUUCGCACUCAUUGCCAAAGUUUCGCACCUGACCCUUAUAAAUGCCACCUGUGGGCUGAUAAACUGC
--------------.-.............((((((..((((((((((..(((((...(((.....))).)))))))))))))))............((.....))))))))......... ( -25.40)
>consensus
______________C_AACUUACUUUCGCCAGUCCGACAGGUGUGAAUAAACUUUUCGCACUCAUUGCUAAAGUUUCGCACCUGACCCUUAUAAAUUCCACCUGUGGGCUGGUAAACUGC
...........................((((((((..((((((((((.....((((.(((.....))).)))).))))))))))..........((.......))))))))))....... (-20.38 = -21.34 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:31 2006