Locus 1705

Sequence ID 2L_DroMel_CAF1
Location 4,675,940 – 4,676,032
Length 92
Max. P 0.950064
window2734 window2735

overview

Window 4

Location 4,675,940 – 4,676,032
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 95.65
Mean single sequence MFE -17.20
Consensus MFE -14.72
Energy contribution -14.96
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -1.81
Structure conservation index 0.86
SVM decision value 1.40
SVM RNA-class probability 0.950064
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4675940 92 + 22407834
UCCUCCAGAAAUCCUCAAAUUGCUCCUGCACCCGCUCGUUAUUUGUUACUAGUGCUGCUCUUCACUUGAAUCUGUUUUUUCAGCAAUUUGAC
..............(((((((((....(((..((((.((........)).)))).)))........((((........))))))))))))). ( -17.80)
>DroSec_CAF1 104645 92 + 1
UCCUCCUGAAAUCCUCAAAUUGCUCCUGCACCCGCUCGUUAUUUGUUACUAGUGCUGCUCUUCACUUGGAUCUGUUUUUUCAGCAAUUUGAC
..............(((((((((....(((..((((.((........)).)))).)))........((((........))))))))))))). ( -17.30)
>DroSim_CAF1 96430 92 + 1
UCCUGCUGAAAUCCUCAAAUUGCUCCUGCACCCGCUCGUUAUUUGUUACUAGUGCUGCUCUUCACUUGGAUCUGUUUUUUCAGCAAUUUGAC
..............(((((((((....(((..((((.((........)).)))).)))........((((........))))))))))))). ( -17.30)
>DroEre_CAF1 108351 91 + 1
UCCUCCUGAAAUCCUCAAAUUGCU-CUGCACCCGCUCGUUAUUUGUUACUAGUGCCGCUCUUCACUUGGAUCUGUUUUUUCAGCAAUUUGAC
..............(((((((((.-..((...((((.((........)).))))..))........((((........))))))))))))). ( -16.20)
>DroYak_CAF1 108669 92 + 1
UCCUGCUGAAAUCCUCAAAUUGCUCCUGCACCCGCUCGUUAUUUGUUACUAGUGCCACUACUCACUUGGUUCUGUUUUUUCAGCAAUUUGAC
...((((((((....(((((.((....((....))..)).)))))....(((.((((.........)))).)))...))))))))....... ( -17.40)
>consensus
UCCUCCUGAAAUCCUCAAAUUGCUCCUGCACCCGCUCGUUAUUUGUUACUAGUGCUGCUCUUCACUUGGAUCUGUUUUUUCAGCAAUUUGAC
..............(((((((((....((...((((.((........)).))))..))........((((........))))))))))))). (-14.72 = -14.96 +   0.24)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 5

Location 4,675,940 – 4,676,032
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 95.65
Mean single sequence MFE -19.40
Consensus MFE -17.86
Energy contribution -17.70
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -1.27
Structure conservation index 0.92
SVM decision value 0.59
SVM RNA-class probability 0.792611
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4675940 92 - 22407834
GUCAAAUUGCUGAAAAAACAGAUUCAAGUGAAGAGCAGCACUAGUAACAAAUAACGAGCGGGUGCAGGAGCAAUUUGAGGAUUUCUGGAGGA
.((((((((((.........(.(((....)))...).(((((.((............)).)))))...)))))))))).............. ( -19.50)
>DroSec_CAF1 104645 92 - 1
GUCAAAUUGCUGAAAAAACAGAUCCAAGUGAAGAGCAGCACUAGUAACAAAUAACGAGCGGGUGCAGGAGCAAUUUGAGGAUUUCAGGAGGA
.(((((((((((......))..(((..((.....)).(((((.((............)).))))).)))))))))))).............. ( -19.40)
>DroSim_CAF1 96430 92 - 1
GUCAAAUUGCUGAAAAAACAGAUCCAAGUGAAGAGCAGCACUAGUAACAAAUAACGAGCGGGUGCAGGAGCAAUUUGAGGAUUUCAGCAGGA
......(((((((((...(((((((..((.....)).(((((.((............)).))))).)))....))))....))))))))).. ( -20.60)
>DroEre_CAF1 108351 91 - 1
GUCAAAUUGCUGAAAAAACAGAUCCAAGUGAAGAGCGGCACUAGUAACAAAUAACGAGCGGGUGCAG-AGCAAUUUGAGGAUUUCAGGAGGA
.((((((((((................((.....)).(((((.((............)).)))))..-)))))))))).............. ( -18.70)
>DroYak_CAF1 108669 92 - 1
GUCAAAUUGCUGAAAAAACAGAACCAAGUGAGUAGUGGCACUAGUAACAAAUAACGAGCGGGUGCAGGAGCAAUUUGAGGAUUUCAGCAGGA
.((((((((((.......((..(((....).))..))(((((.((............)).)))))...)))))))))).............. ( -18.80)
>consensus
GUCAAAUUGCUGAAAAAACAGAUCCAAGUGAAGAGCAGCACUAGUAACAAAUAACGAGCGGGUGCAGGAGCAAUUUGAGGAUUUCAGGAGGA
.((((((((((................((.....)).(((((.((............)).)))))...)))))))))).............. (-17.86 = -17.70 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:01 2006