Locus 3208

Sequence ID 3L_DroMel_CAF1
Location 9,357,302 – 9,357,437
Length 135
Max. P 0.590379
window4995 window4996

overview

Window 5

Location 9,357,302 – 9,357,414
Length 112
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 88.10
Mean single sequence MFE -31.70
Consensus MFE -24.59
Energy contribution -24.60
Covariance contribution 0.01
Combinations/Pair 1.10
Mean z-score -1.90
Structure conservation index 0.78
SVM decision value -0.04
SVM RNA-class probability 0.514016
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9357302 112 - 23771897
UGCAAACAUUUUUGCAGUUGCUUUCGCCACUGCUUCGCGAAGUGGGA-AACGGGGCAAUUGAAAAUUUUGCAAAUCAUUGCCAGUCUGUUGCAAGUGUUUCGAUUAUUAUAUG
((((((....))))))(((.(((((.(((((.........)))))))-)).).)))((((((((..(((((((...((.....))...)))))))..))))))))........ ( -28.20)
>DroSim_CAF1 7102 110 - 1
UGCAAACAUUUUUGCAGUUGCCUUCUCCACUGCUUCGCGAAGUGGGA-AACGGGGCAAUUGAAAAUUUUGCAAGUUAUUUGCUGUCUGUUGCAAG--UUUCGAUUAUUAUCUG
((((((...((((.((((((((((.((((((.........)))))).-...)))))))))))))).)))))).(..((((((........)))))--)..)(((....))).. ( -32.10)
>DroEre_CAF1 6520 108 - 1
UGCAAACAUUUUUGCAGUUGCCUU-GCCACUGCUUCGCGAAGUGGGAAAACGGGGCAAUUGGAGAUUUUGCAAAUUAUUUGCAGUCUGUUGCAAG--AGUGGAUUAUUGUA--
(((((.((((((((((((((((((-(...(..(((....)))..).....))))))))))..((((..(((((.....)))))))))...)))))--)))).....)))))-- ( -34.80)
>consensus
UGCAAACAUUUUUGCAGUUGCCUUCGCCACUGCUUCGCGAAGUGGGA_AACGGGGCAAUUGAAAAUUUUGCAAAUUAUUUGCAGUCUGUUGCAAG__UUUCGAUUAUUAUAUG
((((((.(((((..((((((((((.....(..(((....)))..)......))))))))))))))))))))).....(((((........))))).................. (-24.59 = -24.60 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 9,357,342 – 9,357,437
Length 95
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 78.52
Mean single sequence MFE -28.50
Consensus MFE -16.86
Energy contribution -16.68
Covariance contribution -0.19
Combinations/Pair 1.28
Mean z-score -1.83
Structure conservation index 0.59
SVM decision value 0.11
SVM RNA-class probability 0.590379
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9357342 95 - 23771897
AUGUUUGCCGUUCUUUUGUUUGUUGCAAACAUUUU------UGCAGUUGC-UUUCGCCACUGCUUCGCGAAGUGGGA-AACGGGGCAAUUGAAAAUUUUGCAA
((((((((((..(....)..))..))))))))(((------(.(((((((-((((.(((((.........)))))))-)....))))))))))))........ ( -24.40)
>DroAna_CAF1 6583 103 - 1
GUGUUUGAGUUCUUUGUGUUUGCUGCAAACAUUUAGCCGCUUCUGGUGGCGCUCCUCUUUUACUUCCCGAAGUCAGGCACAAGGGCAAUUCAACGAUUUGCAA
((((((((.(((...(((((((...)))))))...(((((.....)))))..................))).))))))))....((((.((...)).)))).. ( -30.70)
>DroSim_CAF1 7140 95 - 1
AUGUUUGCCGUUCUUUUGUUUGCUGCAAACAUUUU------UGCAGUUGC-CUUCUCCACUGCUUCGCGAAGUGGGA-AACGGGGCAAUUGAAAAUUUUGCAA
((((((((.((.(....)...)).))))))))(((------(.(((((((-(((.((((((.........)))))).-...))))))))))))))........ ( -28.30)
>DroEre_CAF1 6556 95 - 1
AUGUUUGCCGUUCUUUUGUUUGCUGCAAACAUUUU------UGCAGUUGC-CUU-GCCACUGCUUCGCGAAGUGGGAAAACGGGGCAAUUGGAGAUUUUGCAA
((((((((.((.(....)...)).)))))))).((------(.(((((((-(((-(...(..(((....)))..).....))))))))))).)))........ ( -30.60)
>consensus
AUGUUUGCCGUUCUUUUGUUUGCUGCAAACAUUUU______UGCAGUUGC_CUUCGCCACUGCUUCGCGAAGUGGGA_AACGGGGCAAUUGAAAAUUUUGCAA
((((((((.((..........)).))))))))...........(((((((.((......((((((....))))))......)).)))))))............ (-16.86 = -16.68 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:06 2006