Locus 2064

Sequence ID X_DroMel_CAF1
Location 5,664,472 – 5,664,698
Length 226
Max. P 0.804987
window3355 window3356

overview

Window 5

Location 5,664,472 – 5,664,578
Length 106
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 77.30
Mean single sequence MFE -29.27
Consensus MFE -17.35
Energy contribution -18.69
Covariance contribution 1.34
Combinations/Pair 1.13
Mean z-score -1.97
Structure conservation index 0.59
SVM decision value 0.58
SVM RNA-class probability 0.788510
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5664472 106 - 22224390
AAGGAAAAGGACAUGUGCGACAUGGUGCAUAGUUCGGUUUUGACUAUGUGCACAGCUGCACAUAUUUAAGCGCCUUUAACAAGCACUCCAUUCGCACUUUG--------AACUU------
......(((..((.((((((.(((((((...(((.((((((((.((((((((....)))))))).))))).)))...)))..)))..))))))))))..))--------..)))------ ( -32.60)
>DroSec_CAF1 3686 108 - 1
AAGGAAAAGGACAUGUGGCACAUAGUGCAUAGUUCGGCA------------GCAGCUUCGCAUAUUUAAGCUCCUUUAACAAGCACUCUAUUCGCACUUUGUGCUAUUUAACUUGGAUUU
......(((.....((((((((.(((((((((....(((------------(.(((((.........))))).)).......))...))))..))))).))))))))....)))...... ( -26.01)
>DroSim_CAF1 4047 108 - 1
AAGGAAAAGGACAUGUGGCACAAAGUGCAUAGUUCGGCA------------GCAGCUUCGCAUAUUUAAGCUCCUUUAACAAGCACUCCAUACGCACUUUGUGCUAUUUAACUUGAAGCU
......(((.....((((((((((((((...((..(((.------------...)))..))........(((.........))).........))))))))))))))....)))...... ( -29.20)
>consensus
AAGGAAAAGGACAUGUGGCACAUAGUGCAUAGUUCGGCA____________GCAGCUUCGCAUAUUUAAGCUCCUUUAACAAGCACUCCAUUCGCACUUUGUGCUAUUUAACUUG_A__U
......(((.....((((((((.(((((...((..(((................)))..))........((...........)).........))))).))))))))....)))...... (-17.35 = -18.69 +   1.34)

alignment

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secondary structure

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dotplot

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Window 6

Location 5,664,578 – 5,664,698
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.63
Mean single sequence MFE -35.93
Consensus MFE -33.07
Energy contribution -32.85
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.07
Structure conservation index 0.92
SVM decision value 0.63
SVM RNA-class probability 0.804987
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5664578 120 - 22224390
GAUUGUUUGGAUUGUAAAUUGACUAGCUUUAAAUGCCAUGACCUCGAGUCAAGCGAGCUCAAGCUGGGCAAUUAAUGGUUUGUCCUUUUGAGUGAAGCAGCUCAAUGGCAUUAGAGCACA
.........................(((((((.(((((((....)((((...((..(((((((..((((((........)))))).)))))))...)).)))).)))))))))))))... ( -37.40)
>DroSec_CAF1 3794 116 - 1
GAUUGUUUGGAUUGUAAAUUGACUAGCUUUAAAUGCCAUGACCUCGAGUCAAGCGAGCUCAAGCUGGGCAAUUUAUGGUUUGUCCUU-UGGGUGAA---GCUCAAUGGCAUUAGAGCACA
.........................(((((((.(((((((((.....))).(((..(((((((..((((((........))))))))-)))))...---)))..)))))))))))))... ( -35.20)
>DroSim_CAF1 4155 116 - 1
GAUUGUUUGGAUUGUAAAUUGACUAGCUUUAAAUGCCAUGACCUCGAGUCAAGCGAGCUCAAGCUGGGCAAUUUAUGGUUUGUCCUU-UGGGUGAA---GCUCAAUGGCAUUAGAGCACA
.........................(((((((.(((((((((.....))).(((..(((((((..((((((........))))))))-)))))...---)))..)))))))))))))... ( -35.20)
>consensus
GAUUGUUUGGAUUGUAAAUUGACUAGCUUUAAAUGCCAUGACCUCGAGUCAAGCGAGCUCAAGCUGGGCAAUUUAUGGUUUGUCCUU_UGGGUGAA___GCUCAAUGGCAUUAGAGCACA
.........................(((((((.(((((((....)((((.......(((((....((((((........))))))...)))))......)))).)))))))))))))... (-33.07 = -32.85 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:22 2006