Locus 1829

Sequence ID X_DroMel_CAF1
Location 5,053,149 – 5,053,248
Length 99
Max. P 0.821804
window2978 window2979

overview

Window 8

Location 5,053,149 – 5,053,248
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.07
Mean single sequence MFE -32.22
Consensus MFE -22.66
Energy contribution -23.22
Covariance contribution 0.56
Combinations/Pair 1.03
Mean z-score -1.89
Structure conservation index 0.70
SVM decision value 0.37
SVM RNA-class probability 0.707078
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5053149 99 + 22224390
UUCCCCGGUGCUGC---------------------CAGUGUGACUGUAUUUUGCGUAAUGCUGAGCAAUGAGCAUAAGAAGAUUAUGUUUUUCGCAACGUUCUUCGGGGGAUUUAUUUUG
((((((.(((((((---------------------((((((.((.((.....)))).)))))).))....)))))..(((((..(((((......))))))))))))))))......... ( -29.40)
>DroSec_CAF1 11582 98 + 1
UUCCCCGGUGCUGC---------------------CAGUGUGACUGUAUUUUGCGUAAUGCUGAGCAAUGAGCAUAAGAAGAUUAUGUUU-UGGCAGCGUUCUUCGAGGGAUUUAUUUUG
.(((((((((((((---------------------((.(((....(((((......)))))...)))..((((((((.....))))))))-))))))))....))).))))......... ( -31.30)
>DroSim_CAF1 11823 98 + 1
UUCCCCGGUGCUGC---------------------CAGUGUGACUGUAUUUUGCGUAAUGCUGAGCAAUGAGCAUAAGAAGAUUAUGUUU-UGGCAGCGUUCUUCGAGGGAUUUAUUUUG
.(((((((((((((---------------------((.(((....(((((......)))))...)))..((((((((.....))))))))-))))))))....))).))))......... ( -31.30)
>DroEre_CAF1 17026 117 + 1
UUCCCUGGUGCUGCCUGUUUCCAUUCACCA--GGCCAGUGUGACUGUAUUUUGCGUAAUGCUGAGCAAUGAGCAUAAGAAGAUUAUGUUU-UGGCAACGUUCUUCGGGGGAUUUAUUUUA
((((((((.((.(((((...........))--)))((((((.((.((.....)))).)))))).((...((((((((.....))))))))-..))...))...))))))))......... ( -32.00)
>DroYak_CAF1 19409 118 + 1
CUCCCUGGUGCUGCCUGUUUCCAGUUUCCAUUCGCCAGUGUGACUGUGUUUUGCGUAAUGCUGAGCAAUGAGCAUAAGAAGAUUAUGUUU-UGGCAGCGUUCUUCGG-GGAUUUAUUUUG
.((((((((((((((.............((((.((((((((.((.((.....)))).)))))).))))))(((((((.....))))))).-.)))))))....))))-)))......... ( -37.10)
>consensus
UUCCCCGGUGCUGC_____________________CAGUGUGACUGUAUUUUGCGUAAUGCUGAGCAAUGAGCAUAAGAAGAUUAUGUUU_UGGCAGCGUUCUUCGGGGGAUUUAUUUUG
((((((((.((........................((((((.((.((.....)))).)))))).((...((((((((.....))))))))...))...))...))))))))......... (-22.66 = -23.22 +   0.56)

alignment

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secondary structure

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dotplot

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Window 9

Location 5,053,149 – 5,053,248
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.07
Mean single sequence MFE -24.20
Consensus MFE -16.58
Energy contribution -16.86
Covariance contribution 0.28
Combinations/Pair 1.10
Mean z-score -2.20
Structure conservation index 0.69
SVM decision value 0.68
SVM RNA-class probability 0.821804
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5053149 99 - 22224390
CAAAAUAAAUCCCCCGAAGAACGUUGCGAAAAACAUAAUCUUCUUAUGCUCAUUGCUCAGCAUUACGCAAAAUACAGUCACACUG---------------------GCAGCACCGGGGAA
.........(((((.(((((..(((......)))....)))))...(((((.((((..........))))....(((.....)))---------------------).))))..))))). ( -21.90)
>DroSec_CAF1 11582 98 - 1
CAAAAUAAAUCCCUCGAAGAACGCUGCCA-AAACAUAAUCUUCUUAUGCUCAUUGCUCAGCAUUACGCAAAAUACAGUCACACUG---------------------GCAGCACCGGGGAA
.........((((.((......(((((((-...(((((.....)))))....((((..........)))).............))---------------------)))))..)))))). ( -22.30)
>DroSim_CAF1 11823 98 - 1
CAAAAUAAAUCCCUCGAAGAACGCUGCCA-AAACAUAAUCUUCUUAUGCUCAUUGCUCAGCAUUACGCAAAAUACAGUCACACUG---------------------GCAGCACCGGGGAA
.........((((.((......(((((((-...(((((.....)))))....((((..........)))).............))---------------------)))))..)))))). ( -22.30)
>DroEre_CAF1 17026 117 - 1
UAAAAUAAAUCCCCCGAAGAACGUUGCCA-AAACAUAAUCUUCUUAUGCUCAUUGCUCAGCAUUACGCAAAAUACAGUCACACUGGCC--UGGUGAAUGGAAACAGGCAGCACCAGGGAA
...............(((((..(((....-.)))....)))))...(((....(((...)))....))).....(((.....))).((--(((((..((....)).....)))))))... ( -26.70)
>DroYak_CAF1 19409 118 - 1
CAAAAUAAAUCC-CCGAAGAACGCUGCCA-AAACAUAAUCUUCUUAUGCUCAUUGCUCAGCAUUACGCAAAACACAGUCACACUGGCGAAUGGAAACUGGAAACAGGCAGCACCAGGGAG
.........(((-(.(.....)((((((.-...(((((.....))))).(((((((...((.....))......(((.....))))).)))))....((....))))))))....)))). ( -27.80)
>consensus
CAAAAUAAAUCCCCCGAAGAACGCUGCCA_AAACAUAAUCUUCUUAUGCUCAUUGCUCAGCAUUACGCAAAAUACAGUCACACUG_____________________GCAGCACCGGGGAA
.........(((((.(.....)(((((...................(((....(((...)))....))).....(((.....))).....................)))))...))))). (-16.58 = -16.86 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:46 2006