Locus 5635

Sequence ID 3R_DroMel_CAF1
Location 14,828,444 – 14,828,601
Length 157
Max. P 0.772130
window9190 window9191

overview

Window 0

Location 14,828,444 – 14,828,561
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 91.45
Mean single sequence MFE -37.14
Consensus MFE -26.44
Energy contribution -26.67
Covariance contribution 0.23
Combinations/Pair 1.07
Mean z-score -3.62
Structure conservation index 0.71
SVM decision value 0.53
SVM RNA-class probability 0.772130
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14828444 117 - 27905053
CGGAAGUGCUCGCUGCUGCUGCUGCGGGGUGAAAAACAAAAAUAAAUGCACCCAGCAGCAGCGGCAAUUUUAUUGGGUUUUUGUGU-CUAAAAUUAAAUUGAAUGCCCGA--AAAUGUUC
(....).......((((((((((((.(((((.................))))).))))))))))))......((((((.((((...-............)))).))))))--........ ( -39.69)
>DroSec_CAF1 6592 114 - 1
CGGAAGUGCUCGCUG------UUGCGGGGUGAAAAACAAAAAUAAAUGCACCAAGCAGCAGCGGCAAUUUUAUUGGGUUUUUGUGUUCUAAAAUUAAAUGAAAUGCCCCAAAAAAUGUAC
.....((((..((((------((((..((((.................))))..))))))))((((.(((((((..(((((........)))))..))))))))))).........)))) ( -35.13)
>DroSim_CAF1 6750 111 - 1
CGGAAGUGCUCGCUG------UUGCGGGGUGAAAAACAAAAAUAAAUGCACCCAGCAGCAGCGGCAAUUUUAUUGGGUUUUUGUGU-CUAAAAUUAAAUUGAAUGCCCGA--AAAUGUAC
.((((.(((.(((((------((((.(((((.................))))).)))))))))))).)))).((((((.((((...-............)))).))))))--........ ( -36.59)
>consensus
CGGAAGUGCUCGCUG______UUGCGGGGUGAAAAACAAAAAUAAAUGCACCCAGCAGCAGCGGCAAUUUUAUUGGGUUUUUGUGU_CUAAAAUUAAAUUGAAUGCCCGA__AAAUGUAC
.((((.(((.(((((......((((.(((((.................))))).)))))))))))).)))).((((((.(((..................))).)))))).......... (-26.44 = -26.67 +   0.23)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,828,481 – 14,828,601
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 94.35
Mean single sequence MFE -39.08
Consensus MFE -30.77
Energy contribution -30.33
Covariance contribution -0.44
Combinations/Pair 1.06
Mean z-score -2.66
Structure conservation index 0.79
SVM decision value 0.29
SVM RNA-class probability 0.670006
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14828481 120 - 27905053
GUUUUCGCCCCGCUUUUCCAUCGCUUUUCCUCCAACCCUGCGGAAGUGCUCGCUGCUGCUGCUGCGGGGUGAAAAACAAAAAUAAAUGCACCCAGCAGCAGCGGCAAUUUUAUUGGGUUU
......((((.((.(((((...((...............))))))).))....((((((((((((.(((((.................))))).))))))))))))........)))).. ( -44.19)
>DroSec_CAF1 6632 114 - 1
GUUUUCAUCCCGCUUUUCCAUCGCUUUUCCUCCAACCCUGCGGAAGUGCUCGCUG------UUGCGGGGUGAAAAACAAAAAUAAAUGCACCAAGCAGCAGCGGCAAUUUUAUUGGGUUU
.................................(((((.(..(((.(((.(((((------((((..((((.................))))..)))))))))))).)))..).))))). ( -35.43)
>DroSim_CAF1 6787 114 - 1
GUUUUCGCCCCGCUUUUCCAUCGCUUUUCCUCCAACCCUGCGGAAGUGCUCGCUG------UUGCGGGGUGAAAAACAAAAAUAAAUGCACCCAGCAGCAGCGGCAAUUUUAUUGGGUUU
.................................(((((.(..(((.(((.(((((------((((.(((((.................))))).)))))))))))).)))..).))))). ( -37.63)
>consensus
GUUUUCGCCCCGCUUUUCCAUCGCUUUUCCUCCAACCCUGCGGAAGUGCUCGCUG______UUGCGGGGUGAAAAACAAAAAUAAAUGCACCCAGCAGCAGCGGCAAUUUUAUUGGGUUU
.((((((((((((.......((((...............)))).(((....))).........))))))))))))((...(((((((((.....((....)).)))..))))))..)).. (-30.77 = -30.33 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:05 2006