Locus 4753

Sequence ID 3R_DroMel_CAF1
Location 12,475,401 – 12,475,500
Length 99
Max. P 0.525888
window7800

overview

Window 0

Location 12,475,401 – 12,475,500
Length 99
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 79.78
Mean single sequence MFE -26.73
Consensus MFE -17.90
Energy contribution -17.52
Covariance contribution -0.39
Combinations/Pair 1.28
Mean z-score -1.22
Structure conservation index 0.67
SVM decision value -0.02
SVM RNA-class probability 0.525888
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12475401 99 + 27905053
AAGAAACGCGGCGGCAACGAGCCCACCAAUCCGGCGGCCAUGGCCCAGGGUCAGGAGUAGUAGCCUGCGAUUAAC-----CA---CGUGUAUUAAUAAUGCUUACUA
......(((((((((.....)))..((.((((.(.(((....)))).))))..)).......))).)))......-----..---...((((.....))))...... ( -25.50)
>DroVir_CAF1 5685 101 + 1
AAGAAGCGCGGCGGCAACGAACCAACCAACCCGGCAGCCAUGGCUCAGGGCCAAGAGUAGG---CAAAGAACAACAAAUACA---UGUGUAUUAAUAAUGCUUAAUA
...((((((((((....).......((.....))..))).((((.....)))).......)---)...........(((((.---...)))))......)))).... ( -21.80)
>DroPse_CAF1 5258 99 + 1
AAGAAGCGUGGUGGCAACGAGCCAACCAAUCCGGCCGCCAUGGCCCAAGGCCAGGAAUAGU---CUUUGAACAAA-----CACAAUGUGUAUUAAUAAUGCUUAAUA
...((((((((((((.....))).)))..(((((((((....))....)))).))).....---..........(-----(((...)))).......)))))).... ( -26.70)
>DroGri_CAF1 5115 101 + 1
AAGAAGCGCGGCGGCAACGAGCCCACCAACCCGGCUGCCAUGGCUCAGGGUCAUGAGUAGGGCAUAAAGAACAACAAAUACA---CGUGUAUUAAUAAUGCUU---A
.....(((((.((....)).((((((((((((....((....))...))))..)).)).))))...................---))))).............---. ( -28.30)
>DroAna_CAF1 5057 98 + 1
AAGAAGCGUGGCGGCAAUGAGCCAACUAACCCGGCCGCCAUGGCCCAGGGCCAGGAGUAG-AUCCUGCCACAAAC-----CA---CGUGUAUUAAUAAUGCUUAAUA
...((((((((((((....((....))......)))))).(((.....(((.((((....-.))))))).....)-----))---............)))))).... ( -31.40)
>DroPer_CAF1 5175 99 + 1
AAGAAGCGUGGUGGCAACGAGCCCACCAAUCCGGCCGCCAUGGCCCAAGGCCAGGAAUAGU---CUUUGAACAAA-----CACAAUGUGUAUUAAUAAUGCUUAAUA
...((((((((((((.....).)))))..(((((((((....))....)))).))).....---..........(-----(((...)))).......)))))).... ( -26.70)
>consensus
AAGAAGCGCGGCGGCAACGAGCCAACCAACCCGGCCGCCAUGGCCCAGGGCCAGGAGUAGU___CUAAGAACAAC_____CA___CGUGUAUUAAUAAUGCUUAAUA
...(((((.((((((..((............)))))))).(((((...))))).............................................))))).... (-17.90 = -17.52 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:04 2006