Locus 1021

Sequence ID 3L_DroMel_CAF1
Location 3,013,947 – 3,014,063
Length 116
Max. P 0.500000
window1577

overview

Window 7

Location 3,013,947 – 3,014,063
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 82.49
Mean single sequence MFE -33.38
Consensus MFE -23.40
Energy contribution -25.65
Covariance contribution 2.25
Combinations/Pair 1.21
Mean z-score -1.49
Structure conservation index 0.70
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3013947 116 + 23771897
CGGAAGUUAAG--AAAGACUAAGACGUCCACCAAAAUGGAUCCCACUUC-CCAUUUGCAUACCCAAGGGGCUCUCAUAUCG-CCGGGUUCCUGGUUCUCAAGUGAUAAGUGGGUUCUAUU
.(((.(((...--.........))).))).....((((((.(((((((.-.((((((...(((..((((((((........-..)))))))))))...))))))..))))))).)))))) ( -38.30)
>DroSim_CAF1 48835 116 + 1
CGGAAGUUAAG--AAAGACUAAGGCGUCCACCAAAAUGGAUCCCACUUC-GCAUUUGCAUACCCAAGGGGCUCUCAUAUCG-CCGGGCUCCUGGUUCUCAAGUGAUAAGUGGGUUCUAUU
.(((.(((...--.........))).))).....((((((.(((((((.-.((((((...(((..((((((((........-..)))))))))))...))))))..))))))).)))))) ( -40.40)
>DroYak_CAF1 49475 116 + 1
CGGAAGUUAAA--AAAGACUCAGGCGCCCACCAAAAUGGAUUCCACUUC-CUAUUUGCAUGCCCAAGAGGCUCUCAUAUCG-UCGAGCUCCUGAUUCUUAAGUGAUAAGUGGGGUCUAUU
.((.((((...--...))))..((...)).))..((((((((((((((.-.((((((........((..((((........-..))))..))......))))))..)))))))))))))) ( -28.64)
>DroAna_CAF1 47373 113 + 1
CGGAAGUUAAAAAAAAGAUUUAGUUGGCCACCAAAAUGGAUUCCAUUUCCCCAUUUGCAUACCCAAGAGGCUCUCGUAUCGGCCAAGUUGGUGGCUUUUA-------AGUGGCGGCUAUU
(....)...........((((((..((((((((((((((...........))))))............((((........))))....)))))))).)))-------))).......... ( -26.20)
>consensus
CGGAAGUUAAA__AAAGACUAAGGCGUCCACCAAAAUGGAUCCCACUUC_CCAUUUGCAUACCCAAGAGGCUCUCAUAUCG_CCGAGCUCCUGGUUCUCAAGUGAUAAGUGGGGUCUAUU
.((.((((........))))..(.....).))..((((((((((((((...((((((...(((..((((((((...........)))))))))))...))))))..)))))))))))))) (-23.40 = -25.65 +   2.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:02 2006