Locus 3333

Sequence ID 2L_DroMel_CAF1
Location 9,641,734 – 9,641,849
Length 115
Max. P 0.619212
window5286

overview

Window 6

Location 9,641,734 – 9,641,849
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.96
Mean single sequence MFE -30.92
Consensus MFE -21.77
Energy contribution -21.00
Covariance contribution -0.77
Combinations/Pair 1.35
Mean z-score -1.11
Structure conservation index 0.70
SVM decision value 0.17
SVM RNA-class probability 0.619212
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9641734 115 + 22407834
AGAAGCCCACAAUGGGUGGAUUGAAGCCACAGGCGGCUAUUUGGCUGCUUCUGCUUAUCGCACACACUCAGGCAGUGAGAGAAAGUAAUU----AUUUUCCAAUUCU-AUACUAAAUUAU
....((((.....))))((((((..(((..((((((((....)))))))).(((.....)))........))).......((((((....----)))))))))))).-............ ( -30.00)
>DroSec_CAF1 42279 116 + 1
AGAAGCCCAUCAUGGGUGGAUUGAAGCCACAGGCGGCUUUUUGGCUGCUUCUGCUUAUCGCACACACUCAGGCAGUGAGAGAAAGUAAUU----AUUUUCCAAUUCCAAUACUAACUUAU
....((((.....))))((((((..(((..((((((((....)))))))).(((.....)))........))).......((((((....----)))))))))))).............. ( -29.90)
>DroSim_CAF1 41741 116 + 1
AGAAGCCCAUCAUGGGUGGAUUGAAGCCACAGGCGGCUAUUUGGCUGCUUCUGCUUAUCGCACACACUCAGGCAGUGAGAGAAAGUAAUU----AUUUUCCAAUUCUAAUACUAACUUAU
....((((.....))))((((((..(((..((((((((....)))))))).(((.....)))........))).......((((((....----)))))))))))).............. ( -30.00)
>DroEre_CAF1 44356 115 + 1
AGAAGC-CACCAUGGGCGGACUGAAGCCACUGGCGGCUAUUUGGCUACUACUGCUCAUCGCACACACUCGGGCAGUGAGAGAAAGUAAUU----AACUUUAGAUUCUAAUCAUAACUCAU
...(((-(.(((..(((........)))..))).))))..........((((((((.............)))))))).((((((((....----.))))).(((....)))....))).. ( -31.32)
>DroYak_CAF1 44097 105 + 1
AGAAGCCCACCAUGGGCGGUAUGAAGCCAUUGGCAGCUAUUUGGCUGCUGCUGCUCAUCGCACACGCUCAGGCAGUGAGAGAAAGUAAU---------------UCUUAUAAUAACUUAA
....((((.....))))(((.....)))...(((((((....)))))))((((((....((....))...))))))..(((((.....)---------------))))............ ( -31.70)
>DroAna_CAF1 54281 113 + 1
AGGAGCCCAGAAUGGGCGCACUAAAGCCACUGGUGGCCAGCUUGCUACUCCUGCUCUUUGGACUUGCUCAGGCAGCGAGACAAAGUAAGUGAAUACUUUC------UUGUAACU-CUUCC
((((((((.....))))(((.....((((....)))).....)))...))))((((((((..((((((.....)))))).)))))..)))...(((....------..)))...-..... ( -32.60)
>consensus
AGAAGCCCACCAUGGGCGGAUUGAAGCCACAGGCGGCUAUUUGGCUGCUUCUGCUCAUCGCACACACUCAGGCAGUGAGAGAAAGUAAUU____AUUUUCCAAUUCUAAUAAUAACUUAU
....(((.....((((((...((((((...((((((((....))))))))..)))..)))....)))))))))............................................... (-21.77 = -21.00 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:58 2006