Locus 88

Sequence ID 2R_DroMel_CAF1
Location 1,338,271 – 1,338,391
Length 120
Max. P 0.777868
window178

overview

Window 8

Location 1,338,271 – 1,338,391
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.62
Mean single sequence MFE -29.54
Consensus MFE -19.64
Energy contribution -19.52
Covariance contribution -0.12
Combinations/Pair 1.25
Mean z-score -1.99
Structure conservation index 0.66
SVM decision value 0.55
SVM RNA-class probability 0.777868
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1338271 120 - 20766785
AAAACGAUUAAUACAACCUCGCAGCGUAUUUCAUUAUGCACGCGAAAGCUUUGCUUGCUAGUAAGUUGGCUUGGCGAAAAGUAAAGCCUCCGAAUCGAAUCCCUUUUCGAGCAUCGCAAC
....................((((((((......)))))..((....))..)))((((......(..(((((.((.....)).)))))..)((.(((((......)))))...)))))). ( -30.00)
>DroSec_CAF1 56736 108 - 1
AAAACGAUUAAUAUACCCUCGCAGCGUAUUUCAUUAUGCACGCGUAAGCUUUGCUUG-CAGUAAGUUGGCUCGGCGAAAAGCAAAGCCUCCGAAUCGAAUCCCCUU-----------AAC
....(((((....(((....((.(((((......)))))..))((((((...)))))-).))).(..((((..((.....))..))))..).))))).........-----------... ( -27.50)
>DroSim_CAF1 34950 109 - 1
AAAACGAUUAAUAUACCCUCGCAGCGUGUUUCAUUAUGCACGCGUAAGCUUUGCUUGCCAGUAAGUUGGCUUGGCGAAAAGCAAAGCCUCCGAAUCGAAUCCCCUU-----------AAC
....(((((..............((((((........))))))....(((((((((((((((......)).))))...))))))))).....))))).........-----------... ( -32.00)
>DroEre_CAF1 38206 103 - 1
AAAACGAUUAAUAUGCCCUCGCAGCGUGUUUCAUUAUGCACGCGUAAGCUUUGCUUGCUGGUAAGUUUGCUGGGCGAAAAGUAAAACCUCCCAAUCGAAUCCC-----------------
....(((((....(((((.....((((((........))))))((((((((.(((....))))))))))).)))))...((......))...)))))......----------------- ( -29.20)
>DroYak_CAF1 25345 102 - 1
AAAACGAUUAAUAUGCCGUCGCAUCGCGUUUCAUUAUGAACGCGUAAGCUUUGGUUACUAGUAAGUUUACUUGGCGAACGGUAAAACCUCCAAAUGGAAUC-C-----------------
.....((((....(((((((((...((((((......))))))((((((((...........))))))))...))).))))))...((.......))))))-.----------------- ( -29.00)
>consensus
AAAACGAUUAAUAUACCCUCGCAGCGUGUUUCAUUAUGCACGCGUAAGCUUUGCUUGCUAGUAAGUUGGCUUGGCGAAAAGUAAAGCCUCCGAAUCGAAUCCC_UU___________AAC
....(((((..........(((.(((((......)))))..)))...(((((((((((((((......))).))))...)))))))).....)))))....................... (-19.64 = -19.52 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:26:25 2006