Locus 3645

Sequence ID 2R_DroMel_CAF1
Location 12,093,699 – 12,093,815
Length 116
Max. P 0.512703
window5933

overview

Window 3

Location 12,093,699 – 12,093,815
Length 116
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 82.07
Mean single sequence MFE -25.42
Consensus MFE -15.14
Energy contribution -15.90
Covariance contribution 0.76
Combinations/Pair 1.25
Mean z-score -1.80
Structure conservation index 0.60
SVM decision value -0.04
SVM RNA-class probability 0.512703
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12093699 116 + 20766785
--AAAUGUUGAGCGACUUUUGGCAUUCAACUCAUGUCAAUAAAUUAUACAUUCAACGAGUGACUUUAUCGCCGGAUUGAGUUACAAAUUGAAUUAUGCCGCCAAUCUAGAUCAUUAAG
--....((((.(((....(((((((.......))))))).....((((.((((((...(((((((.(((....))).)))))))...)))))))))).)))))))............. ( -24.30)
>DroSec_CAF1 7039 118 + 1
AAAAAGGUUGAGCGACUUUUGGCAUUUAACUCAUGUCAAUAAAUUAUACAUUCCACGAGUGACUUUAUCGCCGGAUUGAGUUACAAAUUGAUUUAUGCCGCCAAUCUAGAACAUUAAA
....((((((.(((.....((((((.......))))))((((((((..(.......).(((((((.(((....))).)))))))....))))))))..)))))))))........... ( -25.40)
>DroSim_CAF1 6164 117 + 1
-AAAAGGUUGAGUGACUUUUGGCAUUCAACUCAUGUCAAUAAAUUAUACAUUCCACGAGUGACUUUAUCGCCGGAUUGAGUUACAAAUUGAUUUAUGCCGCCAAUCUAAAACAUUAAA
-...((((((.(((.....((((((.......))))))((((((((..(.......).(((((((.(((....))).)))))))....))))))))..)))))))))........... ( -23.50)
>DroEre_CAF1 7136 105 + 1
--GCAGCUUGAGUAACUUUCGACAUUCAACUAAUGUCAAUAAAUUAUACAUUCAAAGAGGUACUUUAUCGCCGGGUUGAGUGACAAAUUAAUUUAUGCUGCCAAACU-----------
--(((((.(((((.......((((((.....))))))...........(((((((...(((........)))...)))))))........))))).)))))......----------- ( -27.10)
>DroYak_CAF1 7713 116 + 1
--GCUGCUUGAGUAACUUUCGACAUUCAACUAAUGUCAAUAAAUUAUACAUUCAAUGAGUGAGUUUAUCGCCGCGUUGAGUGGCAAAUUUAUUUAUGGCUCCAAUCUUCAUUAUUGCA
--.......((((.......((((((.....))))))((((((((...(((((((((.((((.....))))..)))))))))...))))))))....))))................. ( -26.80)
>consensus
__AAAGGUUGAGUGACUUUUGGCAUUCAACUCAUGUCAAUAAAUUAUACAUUCAACGAGUGACUUUAUCGCCGGAUUGAGUUACAAAUUGAUUUAUGCCGCCAAUCUAGAACAUUAAA
....((((((.(((......(((((.......))))).....................(((((((.(((....))).)))))))..............)))))))))........... (-15.14 = -15.90 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:43 2006