Locus 5392

Sequence ID X_DroMel_CAF1
Location 14,027,733 – 14,027,840
Length 107
Max. P 0.799842
window8749 window8750

overview

Window 9

Location 14,027,733 – 14,027,840
Length 107
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.83
Mean single sequence MFE -32.91
Consensus MFE -22.40
Energy contribution -22.97
Covariance contribution 0.57
Combinations/Pair 1.14
Mean z-score -2.64
Structure conservation index 0.68
SVM decision value 0.61
SVM RNA-class probability 0.799842
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14027733 107 + 22224390
UUA------AAUGGAGAGGGCAUAGCUACUAUGGAGUCGGAUUAACCAGAUUUCUUUAGCUAUAAUUUUGAUGGUUAGGGAAUCCUAUCUAGAGAUGCCACAUCCCCAUAUUC-------
...------.((((.((.(((((..(((....((((((((.....)).)))((((((((((((.......)))))))))))))))....)))..)))))...)).))))....------- ( -32.10)
>DroSec_CAF1 54366 120 + 1
UUAAUCCAAAAUGGAGAGGGCAUAGCUCCUAUGGAAUUGGGUUAACCCGAUUUCUUUAGACAUCAUUUUGGUGGUUAGGGAAUCCUAUCUAGAGAUACUACAUCCCCAUAUUCCUAGCAA
.....(((((((((...((((...))))(((.(((((((((....)))))))))..)))...)))))))))..(((((((((((((....)).)))..............)))))))).. ( -33.03)
>DroSim_CAF1 54137 120 + 1
UUAAUCCAAAAUGGAGAGGGCAUAGCUCCUAUGGAAUCGGGUUAACCCGAUUUCUUUAGAUAUCAUUUUGAUGGUAAGGGAAUCCUAUCUAGAGAUACUACAUCCCCAUAUUCCUGGCAA
.....(((....((((.((((...)))).((((((((((((....)))))))((((((((((((((....))))))(((....))).))))))))..........))))))))))))... ( -33.60)
>consensus
UUAAUCCAAAAUGGAGAGGGCAUAGCUCCUAUGGAAUCGGGUUAACCCGAUUUCUUUAGAUAUCAUUUUGAUGGUUAGGGAAUCCUAUCUAGAGAUACUACAUCCCCAUAUUCCU_GCAA
..........((((.((.(((((((...))))).(((((((....)))))))((((((((((((.....))))..((((....))))))))))))..))...)).))))........... (-22.40 = -22.97 +   0.57)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,027,733 – 14,027,840
Length 107
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 85.83
Mean single sequence MFE -29.18
Consensus MFE -22.55
Energy contribution -23.00
Covariance contribution 0.45
Combinations/Pair 1.16
Mean z-score -1.90
Structure conservation index 0.77
SVM decision value 0.16
SVM RNA-class probability 0.613875
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14027733 107 - 22224390
-------GAAUAUGGGGAUGUGGCAUCUCUAGAUAGGAUUCCCUAACCAUCAAAAUUAUAGCUAAAGAAAUCUGGUUAAUCCGACUCCAUAGUAGCUAUGCCCUCUCCAUU------UAA
-------....(((((((.(.(((.........((((....))))............(((((((........(((.....))).........)))))))))))))))))).------... ( -25.53)
>DroSec_CAF1 54366 120 - 1
UUGCUAGGAAUAUGGGGAUGUAGUAUCUCUAGAUAGGAUUCCCUAACCACCAAAAUGAUGUCUAAAGAAAUCGGGUUAACCCAAUUCCAUAGGAGCUAUGCCCUCUCCAUUUUGGAUUAA
......((....((((((.((..((((....))))..)))))))).)).((((((((...............(((....)))........(((.((...)))))...))))))))..... ( -28.40)
>DroSim_CAF1 54137 120 - 1
UUGCCAGGAAUAUGGGGAUGUAGUAUCUCUAGAUAGGAUUCCCUUACCAUCAAAAUGAUAUCUAAAGAAAUCGGGUUAACCCGAUUCCAUAGGAGCUAUGCCCUCUCCAUUUUGGAUUAA
...((((((....((((..(((((.(((.((((((((....))....(((....))).)))))).)))(((((((....)))))))........)))))..))))....))))))..... ( -33.60)
>consensus
UUGC_AGGAAUAUGGGGAUGUAGUAUCUCUAGAUAGGAUUCCCUAACCAUCAAAAUGAUAUCUAAAGAAAUCGGGUUAACCCGAUUCCAUAGGAGCUAUGCCCUCUCCAUUUUGGAUUAA
...((((((....((((..(((((.........((((....))))...............((((..(((.(((((....))))))))..)))).)))))..))))....))))))..... (-22.55 = -23.00 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:51 2006