Locus 6776

Sequence ID 2L_DroMel_CAF1
Location 18,940,929 – 18,941,035
Length 106
Max. P 0.639259
window10819

overview

Window 9

Location 18,940,929 – 18,941,035
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 80.34
Mean single sequence MFE -22.56
Consensus MFE -12.20
Energy contribution -13.02
Covariance contribution 0.82
Combinations/Pair 1.12
Mean z-score -1.97
Structure conservation index 0.54
SVM decision value 0.22
SVM RNA-class probability 0.639259
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18940929 106 - 22407834
GAAGGGAAAACCGCAGAGUGAACUCAAAUAU----GUAUUCUGCUCCGGAAACGCCGAGUCUAACUCUAUCCACCACUC------AAUUCGCGGAAUGAUUUCCCCAAAACCACCA----
...((((((......(((....)))......----.((((((((..((....))..(((.....)))............------.....)))))))).))))))...........---- ( -26.90)
>DroSec_CAF1 65861 106 - 1
GAAGGGGAAACCGCAGAGUGAACUCAAAUAU----GUAUUCUGCUCCGGAAAUGCCGAGUCUAACUCUAUCCACCACUC------AAUUCGCGGAAUGAUUUCCCCAAAACCACCA----
...(((((((.....(((....)))......----.((((((((...((.....))(((.....)))............------.....)))))))).)))))))..........---- ( -28.90)
>DroSim_CAF1 66100 106 - 1
GAAGGAGAAACAGCAGAGUGAACUCAAAUAU----GUAUUCCGCUCCGGAAAUGCCGAGUCUAACUCUAUCCACCACUC------AAUUCGCGGAAUGAUUUCCCCAAAACCACCA----
...((.((((.....(((....)))......----.((((((((...((.....))(((.....)))............------.....)))))))).)))).))..........---- ( -24.20)
>DroEre_CAF1 65790 110 - 1
-AAAGCGAAAAAUCCGAGUGAGCUCAAAUAUGAAUGCAGUCUGCUC---------CGAGUCUAACUCUAUCCACCACUCAAUCUCAAUUCGCGGAAUGUUUUCCCCAAAACCACCACUAU
-...(((((......((((..(((((........)).)))..))))---------.(((.....)))....................)))))((((....))))................ ( -19.80)
>DroYak_CAF1 65899 95 - 1
--------AACCUCAGAGUGAGCUCUAAUAU----GUAGUCUGCUC---------CGAGUCUAACUCUAUCCACCACUCAAUCUCAAUUCGCUGAAUGAUUUCCCCAAAACCACCA----
--------....(((((((((((.(((....----.)))...))))---------.(((.....)))........))))....(((......))).))).................---- ( -13.00)
>consensus
GAAGGGGAAACCGCAGAGUGAACUCAAAUAU____GUAUUCUGCUCCGGAAA_GCCGAGUCUAACUCUAUCCACCACUC______AAUUCGCGGAAUGAUUUCCCCAAAACCACCA____
...............(((....)))...........((((((((...((.....))(((.....))).......................))))))))...................... (-12.20 = -13.02 +   0.82)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:41 2006