Locus 3284

Sequence ID 2R_DroMel_CAF1
Location 11,214,339 – 11,214,433
Length 94
Max. P 0.789036
window5380

overview

Window 0

Location 11,214,339 – 11,214,433
Length 94
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 76.24
Mean single sequence MFE -21.32
Consensus MFE -10.40
Energy contribution -10.76
Covariance contribution 0.36
Combinations/Pair 1.25
Mean z-score -1.95
Structure conservation index 0.49
SVM decision value 0.58
SVM RNA-class probability 0.789036
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11214339 94 + 20766785
AUAA-UGAAUUCAACUAACAAAUUUUGGCAUCGUCAACGUGCCAAGAUUGCAAAUCAAAAG----CAAUCUGUUUUGAAGACGAGGCGACGACGCAUUU
....-((..(((((..((((....((((((.((....))))))))((((((.........)----))))))))))))))..))..(((....))).... ( -23.40)
>DroSec_CAF1 471 93 + 1
CUAU-UGAAUUCAACUAACAAAU-UUGGCAUCGUCAACGUGCCAAGAUUGCAAAUCAGAAG----CAAUCUGUUUGAAAGACGAGGCGACGACGCAUUU
....-....(((..((..(((((-.(((((.((....)))))))(((((((.........)----)))))))))))..))..)))(((....))).... ( -22.60)
>DroSim_CAF1 466 85 + 1
AUAA-UGAAUUCAACUAACAAAU-UUGGCAUCGUCAACGUGCCAAGAUUGCAAAUCAGAAG----CAAUCUGUUUGAAAGAC--------GACGCAUUU
..((-((...((..((..(((((-.(((((.((....)))))))(((((((.........)----)))))))))))..))..--------))..)))). ( -20.40)
>DroYak_CAF1 479 93 + 1
AUAA-UGAAUUCAACUAACACAUUUUGGCAUCGUCAACGUGCCAAGAUUGCAAAUCAGAAG----CAAUCAA-UUGAAAGACGUGGCGUUGGCGCAUUU
..((-((...(((((...(((...((((((.((....))))))))((((((.........)----)))))..-.........)))..)))))..)))). ( -25.50)
>DroAna_CAF1 464 82 + 1
AGAAUGGAAUUCAGCUAAAACAUUUUCGUGUCGUCUACGUGCGAUGAUUGCAAAUUGCAAAUCCCCAAGCUGCU-----------------ACGUACUU
((.(((.....(((((.........(((((.((....)))))))...((((.....)))).......)))))..-----------------.))).)). ( -14.70)
>consensus
AUAA_UGAAUUCAACUAACAAAUUUUGGCAUCGUCAACGUGCCAAGAUUGCAAAUCAGAAG____CAAUCUGUUUGAAAGACG_GGCG__GACGCAUUU
....................((((((((((.((....)))))))))))).................................................. (-10.40 = -10.76 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:48 2006