Locus 3400

Sequence ID 2R_DroMel_CAF1
Location 11,512,003 – 11,512,102
Length 99
Max. P 0.698427
window5554

overview

Window 4

Location 11,512,003 – 11,512,102
Length 99
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 80.70
Mean single sequence MFE -36.16
Consensus MFE -23.94
Energy contribution -25.67
Covariance contribution 1.72
Combinations/Pair 1.13
Mean z-score -1.65
Structure conservation index 0.66
SVM decision value 0.35
SVM RNA-class probability 0.698427
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11512003 99 + 20766785
GUCCAGCGCGGCGCACAAAGAUCGAUACAUUGUGCUCGACUAGCUUCGGCUGGAAUUCGCGCAGGGCGGUGAUGAUGCCUGCA-----CAGAGUAUUACA-UUUA
((((.((((((.((((((.(.......).))))))....(((((....)))))...)))))).))))((((.((((((((...-----.)).))))))))-)).. ( -38.70)
>DroVir_CAF1 4598 101 + 1
GGCCCGCACGGCGCACAAAGAUCGAGACAUUGUGCUCGACCAGCUUGGGCUGGAACUCGCGCAGGGCCGUGAUGAUGCCUACA----ACAAAGUACGGUAAUUUA
(((((.....((((.......(((((.(.....))))))(((((....))))).....)))).))))).......(((((((.----.....))).))))..... ( -39.20)
>DroGri_CAF1 4825 105 + 1
GUCCGGCACGGCGCACAAAAAUCGACACGUUGUGCUCGACCAGCUUCGACUGGAAUUCGCGCAGGGCCGUAAUGAUACCUGUGACGAACAAAGUGAGGUGAUUUA
(((.(((((((((..............))))))))).)))..(((((.(((....((((((((((............)))))).))))...))))))))...... ( -35.24)
>DroEre_CAF1 4153 99 + 1
GUCCAGCGCGUCGCACAAAGAUCGAUACAUUGUGUUCGACUAGCUUUGGCUGGAACUCGCGCAGGGCGGUGAUGAUGCCUGCG-----CAGAUUAUUAGA-UUUA
.((((((((...)).(((((.((((.((.....))))))....)))))))))))....(((((((.((.......))))))))-----)...........-.... ( -32.90)
>DroYak_CAF1 4143 99 + 1
GUCCAGCGCGUCGCACAAAGAUCGAUACAUUGUGUUCGACAAGCUUCGGCUGGAACUCGCGCAGGGCGGUGAUGAUGCCUGUG-----CAAAGUAUUACA-UUUA
((((.(((((((((((((.(.......).)))))..)))).(((....))).......)))).)))).((((((.(((....)-----))...)))))).-.... ( -33.30)
>DroAna_CAF1 4019 96 + 1
GGCCGGCGCGACGCACAAAGAUGGACACGUUGUGCUCCACCAGCUUGGGCUGGAACUCGCGCAGGGCGGUGAUGAUACCUGGG-----GAAUGAGUCACG-U---
.(((.((((((.(((((...(((....))))))))....(((((....)))))...))))))..))).(((((.((.((...)-----).))..))))).-.--- ( -37.60)
>consensus
GUCCAGCGCGGCGCACAAAGAUCGAUACAUUGUGCUCGACCAGCUUCGGCUGGAACUCGCGCAGGGCGGUGAUGAUGCCUGCG_____CAAAGUAUUACA_UUUA
((((.(((((..((((((...........))))))....(((((....)))))....))))).))))(((......))).......................... (-23.94 = -25.67 +   1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:36 2006