Locus 6929

Sequence ID X_DroMel_CAF1
Location 17,339,571 – 17,339,664
Length 93
Max. P 0.965611
window11329 window11330

overview

Window 9

Location 17,339,571 – 17,339,664
Length 93
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 80.68
Mean single sequence MFE -19.54
Consensus MFE -12.60
Energy contribution -14.10
Covariance contribution 1.50
Combinations/Pair 1.19
Mean z-score -2.39
Structure conservation index 0.64
SVM decision value 1.49
SVM RNA-class probability 0.958089
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17339571 93 + 22224390
UUUUGCUGUAAAUUAAUAUACCCUUGAAGUGGGUAUAACUUUAAGGUAAACGCUUGAAAAUAGGUUCAC---AACUAUUCU----UUUUUUUAAACAAAU
.((((((.((((....(((((((.......)))))))..)))).)))))).(.(((((((.(((.....---.......))----).))))))).).... ( -16.00)
>DroSec_CAF1 56800 94 + 1
UUUUGCUGUUUAUUAAUAUACCCUUGAAGUGGGUAUAACUUUAAGGUAAACGCUUGAAAAUAGGUUCA----AACCAUU--AUUAUUUUAUUAAACAAAU
......((((((.((((((((((.......))))))).......(((....(((((....)))))...----.)))...--......))).))))))... ( -17.80)
>DroEre_CAF1 57372 96 + 1
UUUUGCUGUACAUUAAAAUACCCUUGAAAUGGGUAUAAUUUUAUUGUGCACGUUUAAAAAUAGAUCCAUCAUAGCUAUUCU----ACUUUUAAAUCAAAC
......((((((.((((((((((.......))))))...)))).)))))).((((((((.((((..............)))----).))))))))..... ( -20.44)
>DroYak_CAF1 48168 96 + 1
UUUUGCUGUACAUUAAUAUACCCUUGAAGUGGGCAUAACUUUAAUGUGCACGCUUGAAAAUAGAUCCAUCAUAGCUAUUCU----AUUUUUGAAACAAAC
....(((((((((((((((.(((.......))).)))...)))))))))).))(..((((((((..............)))----)))))..)....... ( -23.94)
>consensus
UUUUGCUGUACAUUAAUAUACCCUUGAAGUGGGUAUAACUUUAAGGUAAACGCUUGAAAAUAGAUCCAU___AACUAUUCU____AUUUUUUAAACAAAC
((..(((((((((((((((((((.......)))))))...)))))))))).))..))........................................... (-12.60 = -14.10 +   1.50)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,339,571 – 17,339,664
Length 93
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 80.68
Mean single sequence MFE -19.57
Consensus MFE -12.88
Energy contribution -12.50
Covariance contribution -0.38
Combinations/Pair 1.26
Mean z-score -2.40
Structure conservation index 0.66
SVM decision value 1.58
SVM RNA-class probability 0.965611
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17339571 93 - 22224390
AUUUGUUUAAAAAAA----AGAAUAGUU---GUGAACCUAUUUUCAAGCGUUUACCUUAAAGUUAUACCCACUUCAAGGGUAUAUUAAUUUACAGCAAAA
.((((((((((....----.........---((((((((.......)).))))))........(((((((.......)))))))....)))).)))))). ( -16.80)
>DroSec_CAF1 56800 94 - 1
AUUUGUUUAAUAAAAUAAU--AAUGGUU----UGAACCUAUUUUCAAGCGUUUACCUUAAAGUUAUACCCACUUCAAGGGUAUAUUAAUAAACAGCAAAA
.((((((............--....(((----((((......)))))))(((((..((((...(((((((.......)))))))))))))))))))))). ( -19.30)
>DroEre_CAF1 57372 96 - 1
GUUUGAUUUAAAAGU----AGAAUAGCUAUGAUGGAUCUAUUUUUAAACGUGCACAAUAAAAUUAUACCCAUUUCAAGGGUAUUUUAAUGUACAGCAAAA
.((((.(((((((((----(((....((.....)).)))))))))))).(((((...((((...((((((.......)))))))))).)))))..)))). ( -20.50)
>DroYak_CAF1 48168 96 - 1
GUUUGUUUCAAAAAU----AGAAUAGCUAUGAUGGAUCUAUUUUCAAGCGUGCACAUUAAAGUUAUGCCCACUUCAAGGGUAUAUUAAUGUACAGCAAAA
(((((.....(((((----(((....((.....)).))))))))))))).((((((((((...(((((((.......))))))))))))))...)))... ( -21.70)
>consensus
AUUUGUUUAAAAAAA____AGAAUAGCU___AUGAACCUAUUUUCAAGCGUGCACAUUAAAGUUAUACCCACUUCAAGGGUAUAUUAAUGUACAGCAAAA
.........................(((....((((......))))...(((((..((((...(((((((.......))))))))))))))))))).... (-12.88 = -12.50 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:09 2006