Locus 5832

Sequence ID 2R_DroMel_CAF1
Location 18,478,376 – 18,478,474
Length 98
Max. P 0.968161
window9341 window9342

overview

Window 1

Location 18,478,376 – 18,478,474
Length 98
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 93.37
Mean single sequence MFE -28.52
Consensus MFE -24.85
Energy contribution -24.60
Covariance contribution -0.25
Combinations/Pair 1.08
Mean z-score -2.50
Structure conservation index 0.87
SVM decision value 1.62
SVM RNA-class probability 0.968161
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18478376 98 + 20766785
UUAUCGGUUUUAAAGCCGACCAAUAAUUUUGGUAGUCUGACACUCUAGCCACUUUAUGUUGCGUGCAAGUGGUUUUGCCUAGCAACAUGUUGCUGGCU
....(((((....)))))(((((.....))))).............((((((..((((((((..(((((....)))))...))))))))..).))))) ( -32.30)
>DroSec_CAF1 35412 98 + 1
UUAUCGGUUUUAAAGCCGACCAAUAAUUUUGGUAGUCUGACACUCUAGCCACUUCGUGUUGGAUUCAAGUGGUUUUCCCUAGCAACAUGUUGCUGGCA
.....((....((((((((((((.....)))))((((..((((............))))..))))....)))))))))(((((((....))))))).. ( -27.50)
>DroSim_CAF1 35711 98 + 1
UUAUCGGUUUUAAAGCCGACCAAUAAUUUUGGUAGUCUGACACUCUAGCCACUUCGUGUUGCAUUCAAGCGGUUUUGCCUAGCAACAUGUUGCUGGCA
....(((((....)))))(((((.....)))))..............(((((..((((((((...((((....))))....))))))))..).)))). ( -26.80)
>DroEre_CAF1 35524 98 + 1
UUAUCGGUUUUAUAGCCGACCAAUAAUUUUGGUAGUCUGACACUCCUGCCACUUUAUGUUGCAUUCAAGUGGCUUUCCCUAGCAACAUGUUGCUGGCA
....(((((....)))))(((((.....)))))..............(((((((.(((...)))..))))))).....(((((((....))))))).. ( -27.50)
>consensus
UUAUCGGUUUUAAAGCCGACCAAUAAUUUUGGUAGUCUGACACUCUAGCCACUUCAUGUUGCAUUCAAGUGGUUUUCCCUAGCAACAUGUUGCUGGCA
....(((((....)))))(((((.....)))))..............(((((..((((((((........((.....))..))))))))..).)))). (-24.85 = -24.60 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 18,478,376 – 18,478,474
Length 98
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 93.37
Mean single sequence MFE -24.32
Consensus MFE -20.51
Energy contribution -20.82
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -1.66
Structure conservation index 0.84
SVM decision value 0.28
SVM RNA-class probability 0.665061
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18478376 98 - 20766785
AGCCAGCAACAUGUUGCUAGGCAAAACCACUUGCACGCAACAUAAAGUGGCUAGAGUGUCAGACUACCAAAAUUAUUGGUCGGCUUUAAAACCGAUAA
(((((.(...(((((((...((((......))))..)))))))...))))))....((((.(((((..........)))))((........)))))). ( -25.70)
>DroSec_CAF1 35412 98 - 1
UGCCAGCAACAUGUUGCUAGGGAAAACCACUUGAAUCCAACACGAAGUGGCUAGAGUGUCAGACUACCAAAAUUAUUGGUCGGCUUUAAAACCGAUAA
..(((((((....))))).))......(((((....(((........)))...)))))........((((.....))))((((........))))... ( -19.90)
>DroSim_CAF1 35711 98 - 1
UGCCAGCAACAUGUUGCUAGGCAAAACCGCUUGAAUGCAACACGAAGUGGCUAGAGUGUCAGACUACCAAAAUUAUUGGUCGGCUUUAAAACCGAUAA
(((((((((....))))).))))....(((((....((.((.....)).))..)))))........((((.....))))((((........))))... ( -24.50)
>DroEre_CAF1 35524 98 - 1
UGCCAGCAACAUGUUGCUAGGGAAAGCCACUUGAAUGCAACAUAAAGUGGCAGGAGUGUCAGACUACCAAAAUUAUUGGUCGGCUAUAAAACCGAUAA
..(((((((....))))).))....(((((((..(((...))).))))))).(((((.....))).))..........(((((........))))).. ( -27.20)
>consensus
UGCCAGCAACAUGUUGCUAGGCAAAACCACUUGAAUGCAACACAAAGUGGCUAGAGUGUCAGACUACCAAAAUUAUUGGUCGGCUUUAAAACCGAUAA
.((((((((....))))).)))....((((((............))))))......((((.(((((..........)))))((........)))))). (-20.51 = -20.82 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:34 2006