Locus 4499

Sequence ID 2L_DroMel_CAF1
Location 12,899,639 – 12,899,731
Length 92
Max. P 0.826774
window7076 window7077

overview

Window 6

Location 12,899,639 – 12,899,731
Length 92
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 89.37
Mean single sequence MFE -24.68
Consensus MFE -19.67
Energy contribution -19.61
Covariance contribution -0.06
Combinations/Pair 1.10
Mean z-score -1.90
Structure conservation index 0.80
SVM decision value 0.70
SVM RNA-class probability 0.826774
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12899639 92 + 22407834
UAUGGCCGGAAAUGCACACACUGGCGCGUUUAAGUAUGUAGGUGUGCCAACAUACUGCUCAUGUACGCAAAUACAUAUA------UGUAUGUAUUGUA
....(((((...........)))))((((...(((((((.((....)).)))))))........)))).((((((((..------..))))))))... ( -27.00)
>DroSec_CAF1 77261 86 + 1
UAUGGCCGGAAAUGCACACACAGGCGCGUUUAAGUAUGUAGGUGUGCCAACA-ACUGCUCAUGUACGCAAAUACAUAUA------UAAAUG-----UA
....(((...............)))(((((((.(((((((.((((((.....-.........))))))...))))))).------))))))-----). ( -22.60)
>DroSim_CAF1 80317 87 + 1
UAUGGCCGGAAAUGCACACACAGGCGCGUUUAAGUAUGUAGGUGUGCCAACAUACUGCUCAUGUACGCAAAUACAUAUA------UGAAUG-----UA
....(((...............)))(((((((.(((((((.((((((...............))))))...))))))).------))))))-----). ( -22.62)
>DroEre_CAF1 82723 93 + 1
UAUGGCCGGAAAUGCACACACAGGCGCGUUUAAGUGUGUAGGUGGGCCAACAUACUGCUCAUGUACGCAAAUACAUGUACUCGUACAUAUG-----UA
..(((((.(...(((((((..(((....)))..)))))))..).)))))(((((.((..(..(((((........)))))..)..))))))-----). ( -26.50)
>consensus
UAUGGCCGGAAAUGCACACACAGGCGCGUUUAAGUAUGUAGGUGUGCCAACAUACUGCUCAUGUACGCAAAUACAUAUA______UAAAUG_____UA
(((((((...............)))((((...(((((((.((....)).)))))))........)))).....))))..................... (-19.67 = -19.61 +  -0.06)

alignment

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secondary structure

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dotplot

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Window 7

Location 12,899,639 – 12,899,731
Length 92
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 89.37
Mean single sequence MFE -21.56
Consensus MFE -18.11
Energy contribution -18.43
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -1.36
Structure conservation index 0.84
SVM decision value -0.02
SVM RNA-class probability 0.524205
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12899639 92 - 22407834
UACAAUACAUACA------UAUAUGUAUUUGCGUACAUGAGCAGUAUGUUGGCACACCUACAUACUUAAACGCGCCAGUGUGUGCAUUUCCGGCCAUA
...((((((((..------..))))))))(((((((((..(((((((((.((....)).))))))).......))..)))))))))............ ( -23.11)
>DroSec_CAF1 77261 86 - 1
UA-----CAUUUA------UAUAUGUAUUUGCGUACAUGAGCAGU-UGUUGGCACACCUACAUACUUAAACGCGCCUGUGUGUGCAUUUCCGGCCAUA
((-----(((...------...)))))..(((((((((..(((((-(((.((....)).))).))).......))..)))))))))............ ( -16.11)
>DroSim_CAF1 80317 87 - 1
UA-----CAUUCA------UAUAUGUAUUUGCGUACAUGAGCAGUAUGUUGGCACACCUACAUACUUAAACGCGCCUGUGUGUGCAUUUCCGGCCAUA
((-----(((...------...)))))..(((((((((..(((((((((.((....)).))))))).......))..)))))))))............ ( -21.41)
>DroEre_CAF1 82723 93 - 1
UA-----CAUAUGUACGAGUACAUGUAUUUGCGUACAUGAGCAGUAUGUUGGCCCACCUACACACUUAAACGCGCCUGUGUGUGCAUUUCCGGCCAUA
..-----...((((((..((.(((((((....))))))).)).))))))(((((....(((((((............))))))).......))))).. ( -25.60)
>consensus
UA_____CAUACA______UAUAUGUAUUUGCGUACAUGAGCAGUAUGUUGGCACACCUACAUACUUAAACGCGCCUGUGUGUGCAUUUCCGGCCAUA
.....................(((((((....))))))).(((((((((.((....)).)))))))...(((((....)))))))............. (-18.11 = -18.43 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:17 2006