Locus 6503

Sequence ID 3R_DroMel_CAF1
Location 17,123,627 – 17,123,729
Length 102
Max. P 0.993860
window10577

overview

Window 7

Location 17,123,627 – 17,123,729
Length 102
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 74.32
Mean single sequence MFE -39.33
Consensus MFE -22.79
Energy contribution -23.97
Covariance contribution 1.17
Combinations/Pair 1.27
Mean z-score -2.58
Structure conservation index 0.58
SVM decision value 2.43
SVM RNA-class probability 0.993860
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17123627 102 + 27905053
CGAU--CCCGAUUGCAGCGUUAUUCGAAAGCUGUGUCUGCGACCGUGACUGAGAUCAUAUGCGUACAUAUAUCUAAUGUCCGGGGUCGUAGGCCAGCCAGGGUG
....--(((........((.....))...((((.((((((((((.((((..((((.(((((....)))))))))...)).)).))))))))))))))..))).. ( -38.40)
>DroPse_CAF1 34930 90 + 1
CAUGUACGCGUUUG--GCG-UACGCGAAAGUUGUGGCUGCGACCCUGACUCAGCCUUAG--UG--------U-UGAUUGUCGGGGUCGCGGCCUGACCAGGGUG
...((((((.....--)))-)))((....))...((((((((((((((((((((.....--.)--------)-)))..)))))))))))))))..((....)). ( -47.50)
>DroSec_CAF1 36005 102 + 1
CGAU--CCCGAUUGCAGCGUUAUUCGAAAGCUGUGUCUGCGACCAUGACUGAGAUUAUAUGCGUACAUAUAUCUAAUGUCCGGGGUCGUGGGCCAGCCAGGGCG
....--(((........((.....))...((((.(((..(((((..(((..((((.(((((....)))))))))...)))...)))))..)))))))..))).. ( -37.20)
>DroEre_CAF1 35808 102 + 1
CGAU--CCCGAUUGCAGCGUUAUUCGAAUGCUGAGUCUGCGACCGUGACUGAGAUCAUAUGCGUAUAUAUAUCUAAUGUCCGGGGUCGUGGGCCAGCCAGGGUA
....--(((.....(((((((.....))))))).(((..(((((.((((..((((.(((((....)))))))))...)).)).)))))..)))......))).. ( -36.00)
>DroYak_CAF1 48210 102 + 1
CGAU--CCAGAUUGCAGCGUUAUUCAAAAGCUGAGUCUGCGACCGUGACUGAGAUCAUAUGCGUAUAUAUAUCUAAUGUCCGGGGUCGUAGGCCAGCCAGGGUG
..((--((.((.((......)).))....((((.((((((((((.((((..((((.(((((....)))))))))...)).)).))))))))))))))..)))). ( -35.10)
>DroPer_CAF1 35090 90 + 1
CAUGUACGCGUUUG--GCG-UACGCGAAAGUUGUGGCUGCGACCCUGACUCAGCCUUAG--UG--------U-UGAUUGUCGGGGUCGCGGACUGACCAGGGUG
...((((((.....--)))-)))((....))(.(((((((((((((((((((((.....--.)--------)-)))..))))))))))))).....))).)... ( -41.80)
>consensus
CGAU__CCCGAUUGCAGCGUUAUUCGAAAGCUGUGUCUGCGACCGUGACUGAGAUCAUAUGCGUA_AUAUAUCUAAUGUCCGGGGUCGUGGGCCAGCCAGGGUG
......(((((.((......)).))....((((.((((((((((..(((..((((.(((((....)))))))))...)))...))))))))))))))..))).. (-22.79 = -23.97 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:54 2006