Locus 5390

Sequence ID 2R_DroMel_CAF1
Location 17,409,609 – 17,409,713
Length 104
Max. P 0.911273
window8604

overview

Window 4

Location 17,409,609 – 17,409,713
Length 104
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 65.58
Mean single sequence MFE -20.37
Consensus MFE -7.86
Energy contribution -8.18
Covariance contribution 0.32
Combinations/Pair 1.17
Mean z-score -2.13
Structure conservation index 0.39
SVM decision value 1.08
SVM RNA-class probability 0.911273
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17409609 104 + 20766785
UCCUUGGGUGGUGGGUGGUGAAAUUCUUUUGCAACCGCUACAAUUUUGCGGU-UUGUAAAACUUUUGGCCAUUCUACCUUUUU-UCCCU-CCUUUUUG---CAGCUUUGU
.....(((.((((((((((.(((...((((((((((((.........)))).-))))))))..))).)))).)))))).....-.))).-........---......... ( -31.60)
>DroVir_CAF1 135897 85 + 1
UUUGUGGGUGUUG-AG-CUCGAAUUUCCUUCUAACCGCUACAAUUUUGUGGUUUUGUAAAACUUUUCCUCG-ACUGCGUGUUGCUUUC----------------------
.......((((((-((-...(((.........((((((.........))))))...........)))))))-)).))...........---------------------- ( -12.95)
>DroSim_CAF1 129058 97 + 1
UCCUUGGGUG-------GUGAAAUUCUUUUGCAACCGCUACAAUUUUGCGGU-UUGUAAAACUUUUGGCCAUUCUACCUUUUU-UUCCU-CCAUUUUG---CUGCUUUGU
.....(((((-------((.(((...((((((((((((.........)))).-))))))))..))).))))))).........-.....-........---......... ( -24.00)
>DroEre_CAF1 124535 98 + 1
UCAUUGGGUGGUG----GGGAAAUUCUUUUGCAACCGCUACAAUUUUGCGGU-UUGUAAAACUUUUGGCCAUUCUACCUUU---UUUCU-CCUCUUUG---CUGCUUUGU
.....(((..(((----((((((...((((((((((((.........)))).-)))))))).....((........))...---)))))-)).....)---)..)))... ( -24.00)
>DroWil_CAF1 160568 87 + 1
------------------CGAAAUUCUUUUCUAACCGCCACAAUUUUGUGGU-UUGUAAAACUUUUC--CCUUCACU-UUUUU-AUUUUAUAUUCUUGCUCCUGCUGUAU
------------------.((((...((((.(((..((((((....))))))-))).))))..))))--........-.....-.............((....))..... (  -9.30)
>consensus
UCCUUGGGUG_UG____GUGAAAUUCUUUUGCAACCGCUACAAUUUUGCGGU_UUGUAAAACUUUUGGCCAUUCUACCUUUUU_UUUCU_CCUUUUUG___CUGCUUUGU
..........................((((((((((((.........)))))..)))))))................................................. ( -7.86 =  -8.18 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:41 2006