Locus 2274

Sequence ID X_DroMel_CAF1
Location 6,158,636 – 6,158,770
Length 134
Max. P 0.780929
window3685 window3686

overview

Window 5

Location 6,158,636 – 6,158,730
Length 94
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 77.78
Mean single sequence MFE -18.97
Consensus MFE -16.24
Energy contribution -15.48
Covariance contribution -0.77
Combinations/Pair 1.21
Mean z-score -1.07
Structure conservation index 0.86
SVM decision value 0.56
SVM RNA-class probability 0.780929
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6158636 94 + 22224390
---------------------AAAGUAAAGUGCAGUAAAUGCAACAAAGUGUUUUGCAUAUGUGCAGCUAAUUGGAACAAAUUCAAUUUAUGUUUAGCUAAAUUAGGCAAAACUU
---------------------.........((((.....)))).......(((((((....((..(((((((((((.....)))))).......)))))..))...))))))).. ( -18.21)
>DroSec_CAF1 11436 94 + 1
---------------------AAAGUAAAGCGCAGUAAAUGCAACAUAGUGUUUUGCAUAUGUGCGGCUAAUUGGAACAAAUUUAAUUUAUGUUUAGUUAAAUUAUGCGAAACUU
---------------------..........(((.....)))........(((((((((.(((....((....)).)))(((((((((.......)))))))))))))))))).. ( -16.80)
>DroEre_CAF1 9118 114 + 1
AGAAGACUUUCGGUGAAAAGUAAAGUUAAGUGCAGUCAAUGUAACAAAGUGUUUUGCAUAUGUGCAGCUAAUUGAAACAAAUUCAAUUU-UGUGUAACUUAAUUAUGCGAAACUU
....(((((((........).))))))...((((.....)))).......((((((((((..((((...(((((((.....))))))).-..)))).......)))))))))).. ( -21.90)
>consensus
_____________________AAAGUAAAGUGCAGUAAAUGCAACAAAGUGUUUUGCAUAUGUGCAGCUAAUUGGAACAAAUUCAAUUUAUGUUUAGCUAAAUUAUGCGAAACUU
...............................(((.....)))........((((((((((((..((...(((((((.....)))))))..))..)).......)))))))))).. (-16.24 = -15.48 +  -0.77)

alignment

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secondary structure

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dotplot

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Window 6

Location 6,158,655 – 6,158,770
Length 115
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 86.67
Mean single sequence MFE -25.74
Consensus MFE -16.79
Energy contribution -17.47
Covariance contribution 0.68
Combinations/Pair 1.19
Mean z-score -2.41
Structure conservation index 0.65
SVM decision value 0.08
SVM RNA-class probability 0.573948
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6158655 115 - 22224390
UUUCGUGCGUGUUGCGGCUAAAGUUUCUGUUUACGUUACAAAGUUUUGCCUAAUUUAGCUAAACAUAAAUUGAAUUUGUUCCAAUUAGCUGCACAUAUGCAAAACACUUUGUUGC
.....(((((((((((((((((((((.((((((.((((...((((......)))))))))))))).)))))(((....)))...))))))))).))))))).............. ( -26.90)
>DroSec_CAF1 11455 115 - 1
UUUCGUGCAUGUUGCGGCUUUAUUUUAUGUUUACGUUACAAAGUUUCGCAUAAUUUAACUAAACAUAAAUUAAAUUUGUUCCAAUUAGCCGCACAUAUGCAAAACACUAUGUUGC
.....(((((((((((((((((.((((((((((.((((...((((......)))))))))))))))))).))).............))))))).))))))).............. ( -28.61)
>DroEre_CAF1 9158 114 - 1
UUUUGUGUAUGUUGUGCUCAAAUUUUCUGUUUACGUUACAAAGUUUCGCAUAAUUAAGUUACACA-AAAUUGAAUUUGUUUCAAUUAGCUGCACAUAUGCAAAACACUUUGUUAC
..(((((((.(((((((..(((((((.((.......)).))))))).))))))).....))))))-)(((((((.....)))))))...((((....)))).............. ( -21.70)
>consensus
UUUCGUGCAUGUUGCGGCUAAAUUUUCUGUUUACGUUACAAAGUUUCGCAUAAUUUAGCUAAACAUAAAUUGAAUUUGUUCCAAUUAGCUGCACAUAUGCAAAACACUUUGUUGC
.....((((((((((((((((.......(....)(..((((((.....).(((((((........)))))))..)))))..)..))))))))).))))))).............. (-16.79 = -17.47 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:23 2006