Locus 2520

Sequence ID X_DroMel_CAF1
Location 6,695,997 – 6,696,117
Length 120
Max. P 0.823701
window4118

overview

Window 8

Location 6,695,997 – 6,696,117
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 63.06
Mean single sequence MFE -48.07
Consensus MFE -27.69
Energy contribution -29.88
Covariance contribution 2.19
Combinations/Pair 1.30
Mean z-score -1.26
Structure conservation index 0.58
SVM decision value 0.69
SVM RNA-class probability 0.823701
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6695997 120 - 22224390
AACGCUCCAGGGCCACGCCCAUGCUGGGCAAUCGCGUUGGCCGGGCGAAAAUGGGACGCAGGAGUCGCGCGGGCAGCAUGCGAUUGCAGCGCCAAAGAUUGUGCGCCUGCUGGGUCCAGC
.........((((...))))..(((((((((((((((((.(((.((((...((.....))....)))).))).))))..))))))(((((((((.....)).))).))))...))))))) ( -55.50)
>DroSec_CAF1 6037 120 - 1
AACGCUCCAGGGCCACGCCCAUGCUGGGCAAUCGCGUUGGCCGGGCGAAAAUGGGACGCAGGAGUCGCGCGGGCAGCAUGCGAUUGCAGCGCCAAAGAUUGUGCGCCUGCUGGGUCCAGC
.........((((...))))..(((((((((((((((((.(((.((((...((.....))....)))).))).))))..))))))(((((((((.....)).))).))))...))))))) ( -55.50)
>DroWil_CAF1 5188 102 - 1
------------------CCAAACUUGGCAGAUUAUUUUGGCGGGAAUAUUAGUUUUGUUUAUGCUUGCAUUAGUGGCCGUUGGCCUAACAAUGCUAAUUGGAUGCAGUCUGAGUGACGA
------------------((((.((((.((((....)))).))))....(((((.(((((...(((......)))((((...)))).))))).))))))))).....(((.....))).. ( -26.20)
>DroYak_CAF1 6161 120 - 1
AACGCUCCAGGGCCACGCCCAUGCUGGGCAAUCGCGUUGGCCUUGCGAAAAUGGGACGCAAAAGGCGCGCGGGCAGCAUGCGGUUGCAGCGCCAAAGAUUGUGCGCCUGCUGGGUCGAGC
...(((((((((((((((...(((...)))...))).)))))))).........(((.((..((((((((((((.((.(((....))))))))......)))))))))..)).))))))) ( -55.10)
>consensus
AACGCUCCAGGGCCACGCCCAUGCUGGGCAAUCGCGUUGGCCGGGCGAAAAUGGGACGCAGAAGUCGCGCGGGCAGCAUGCGAUUGCAGCGCCAAAGAUUGUGCGCCUGCUGGGUCCAGC
...(((....)))...(((((.((.((((((((((((((.(((.((((...((.....))....)))).))).))))..)))))))).((((........)))).)).)))))))..... (-27.69 = -29.88 +   2.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:47 2006