Locus 4233

Sequence ID X_DroMel_CAF1
Location 11,096,063 – 11,096,159
Length 96
Max. P 0.954589
window6955 window6956

overview

Window 5

Location 11,096,063 – 11,096,159
Length 96
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 82.50
Mean single sequence MFE -21.22
Consensus MFE -12.68
Energy contribution -12.50
Covariance contribution -0.19
Combinations/Pair 1.09
Mean z-score -2.85
Structure conservation index 0.60
SVM decision value 1.45
SVM RNA-class probability 0.954589
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11096063 96 + 22224390
GCCAACCUUGCAACCUUUAUGCUGCAACCGAACAGUGUUGCAAAGUUGGUCAUACUCGAAGCAGUUAACCAUUUACUUUUAGCCCAACAUUUCAAC
((((((.(((((((......((((........))))))))))).))))))....((.((((.((........)).)))).)).............. ( -19.00)
>DroSec_CAF1 15270 83 + 1
GCCAACCUUGCACC-------------ACGAACAGUGUUGCAAAGUUGGCGAUAUUCGAACCAGUUAACCAUUUACUUUUAGACCAAUAUUUUGAC
((((((.(((((.(-------------((.....))).))))).)))))).............................................. ( -20.80)
>DroSim_CAF1 9670 83 + 1
GCCAACCUUGCACC-------------ACGAACAGUGUUGCAAAGUUGGCCAUAUUCGAACCAGUUAACCAUUUACUUUUAGACCAAUAUUUUGCC
((((((.(((((.(-------------((.....))).))))).)))))).............................................. ( -19.90)
>DroEre_CAF1 13562 83 + 1
GCCAACCUUGCACC-------------ACGAACAGUGCUGCAAAGUUGGCCAUUUUCGAAACAGUUUGCCAUUUACUUUUAGCCAAAUCUUUCGAC
((((((.(((((.(-------------((.....))).))))).)))))).....((((((..(((((.(...........).))))).)))))). ( -25.20)
>consensus
GCCAACCUUGCACC_____________ACGAACAGUGUUGCAAAGUUGGCCAUAUUCGAACCAGUUAACCAUUUACUUUUAGACCAAUAUUUCGAC
((((((.(((((..........................))))).)))))).............................................. (-12.68 = -12.50 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 11,096,063 – 11,096,159
Length 96
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 82.50
Mean single sequence MFE -27.00
Consensus MFE -15.82
Energy contribution -16.07
Covariance contribution 0.25
Combinations/Pair 1.12
Mean z-score -2.76
Structure conservation index 0.59
SVM decision value 1.22
SVM RNA-class probability 0.931887
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11096063 96 - 22224390
GUUGAAAUGUUGGGCUAAAAGUAAAUGGUUAACUGCUUCGAGUAUGACCAACUUUGCAACACUGUUCGGUUGCAGCAUAAAGGUUGCAAGGUUGGC
.(((((..(((((.(((........))))))))...)))))......(((((((((((((.((((......)))).......))))))))))))). ( -26.90)
>DroSec_CAF1 15270 83 - 1
GUCAAAAUAUUGGUCUAAAAGUAAAUGGUUAACUGGUUCGAAUAUCGCCAACUUUGCAACACUGUUCGU-------------GGUGCAAGGUUGGC
......(((((.(......(((.........)))....).))))).((((((((((((.(((.....))-------------).)))))))))))) ( -23.70)
>DroSim_CAF1 9670 83 - 1
GGCAAAAUAUUGGUCUAAAAGUAAAUGGUUAACUGGUUCGAAUAUGGCCAACUUUGCAACACUGUUCGU-------------GGUGCAAGGUUGGC
......(((((.(......(((.........)))....).))))).((((((((((((.(((.....))-------------).)))))))))))) ( -24.00)
>DroEre_CAF1 13562 83 - 1
GUCGAAAGAUUUGGCUAAAAGUAAAUGGCAAACUGUUUCGAAAAUGGCCAACUUUGCAGCACUGUUCGU-------------GGUGCAAGGUUGGC
.((((((.(.((.((((........)))).)).).)))))).....((((((((((((.(((.....))-------------).)))))))))))) ( -33.40)
>consensus
GUCAAAAUAUUGGGCUAAAAGUAAAUGGUUAACUGGUUCGAAUAUGGCCAACUUUGCAACACUGUUCGU_____________GGUGCAAGGUUGGC
.(((((...((((.(((........)))))))....))))).....((((((((((((.(......................).)))))))))))) (-15.82 = -16.07 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:49 2006