Locus 5494

Sequence ID 2R_DroMel_CAF1
Location 17,651,083 – 17,651,188
Length 105
Max. P 0.943509
window8767

overview

Window 7

Location 17,651,083 – 17,651,188
Length 105
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 80.26
Mean single sequence MFE -24.48
Consensus MFE -16.25
Energy contribution -17.00
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.23
Structure conservation index 0.66
SVM decision value 1.34
SVM RNA-class probability 0.943509
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17651083 105 + 20766785
--------------UUUGAGUUGAUUAUUCUUUCUCAGUUUUCCCCCUGCUUAAGUUCUCUUACACUGAAUUUUCAGUUCAUUGACGGGGAAAGCGCCCUGCCAAAUCUAAUUGGAACU
--------------..((((..((....))...))))(((((((((.....((((....))))((.(((((.....))))).))..)))))))))......((((......)))).... ( -26.40)
>DroSec_CAF1 4663 119 + 1
GUAUCUUUCAGCUCUUAGAAUACAUUCUUUUUUCUUAUUUUCCCCCCUGCUUAAGUUCUCUUACAAUGAAUUUUCAGUUCAUUGACGGGGAAAGCGCCCUGCCAAAUCUAAUUGGAUCU
..........((....((((....))))..........(((((((......((((....))))((((((((.....))))))))..)))))))))......((((......)))).... ( -23.50)
>DroEre_CAF1 4766 114 + 1
---UCUUUUGGAUCUUAAAAUCCAUUCU-UUUUCUUAGUUUU-CCCCAGCCUAAGUUCUCUUACAAUGCAUUUUCAGUUCAUUGACGGGGAAAGCGCCCUGCAAAGUCUAAUUGGAACU
---(((.(((((.(((............-........(((((-((((....((((....))))(((((.((.....)).)))))..)))))))))((...)).))))))))..)))... ( -25.40)
>DroYak_CAF1 16048 115 + 1
---GCAUUUAGCUUUUAAUAUCCAUUCCAUUUUCUUAGUUCC-CCCUAGCUUAAGUUCUUUCACAAUGAAUUUUCAGUUCAUUGACGGGGAAAGCGCCCUGCCAACUCUAAUUGGAACU
---((.....))........................((((((-...(((....((((......((((((((.....)))))))).(((((......)))))..)))))))...)))))) ( -22.60)
>consensus
___UCUUUUAGCUCUUAAAAUCCAUUCUUUUUUCUUAGUUUC_CCCCAGCUUAAGUUCUCUUACAAUGAAUUUUCAGUUCAUUGACGGGGAAAGCGCCCUGCCAAAUCUAAUUGGAACU
.....................................................((((((....((((((((.....)))))))).(((((......)))))............)))))) (-16.25 = -17.00 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:18 2006