Locus 2908

Sequence ID 2L_DroMel_CAF1
Location 8,360,785 – 8,360,875
Length 90
Max. P 0.948847
window4614 window4615

overview

Window 4

Location 8,360,785 – 8,360,875
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 88.22
Mean single sequence MFE -19.20
Consensus MFE -13.80
Energy contribution -13.60
Covariance contribution -0.20
Combinations/Pair 1.19
Mean z-score -1.74
Structure conservation index 0.72
SVM decision value 0.09
SVM RNA-class probability 0.580897
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8360785 90 + 22407834
GUAAAGACAUGUGGAGUGAUCACUUCAUUAUCUACUGUUUUUCAUGCACAACUAUGACUUGCACAGAUAAUAAAAUGUCUCCAUUGAUGU
....((((((..(((((....)))))(((((((..(((...(((((......)))))...))).)))))))...)))))).......... ( -19.10)
>DroSec_CAF1 3443 90 + 1
GUAAAGACAUGUGGAGUGAUCACUUCAUUAUCUACUGUCUUUCAUGCACAAUUAUGACUUGCAAAGAUAAUAAAACGUCUCCAUUGAUGU
(.(((((((.(((((((((.....))))..))))))))))))).((((...........))))...........(((((......))))) ( -20.10)
>DroSim_CAF1 3461 90 + 1
GUGAAGACAUGUGGAGUGAUCACUUCAUUAUCUACUGUCUUUCAUGCACAACUAUGACUUGCAAAGAUAAUAAAACGUCUCCAUUGAUGU
(((((((((.(((((((((.....))))..))))))))).)))))(((...........)))............(((((......))))) ( -20.20)
>DroEre_CAF1 3426 87 + 1
GUA--GACAUUUGGAGUGAUCACUUCAUUAUCUGCUGUCUU-UAUACACAACUAUGACUUGCACAGAUAACAAAGAAUCUCCAAUGAUGU
...--.((((((((((......(((..(((((((.(((..(-((((......)))))...))))))))))..)))...)))))..))))) ( -19.10)
>DroYak_CAF1 3478 90 + 1
GUAAAGACAUUUGGAGUGAUCACUUUUUUAUCUAAUGUCGUUGAUACACCACUAUGACUUGCACAGAUAAAAAUAAAUCUCCAUUGAUGU
......((((((((((........(((((((((...(((((((......))..)))))......))))))))).....)))))..))))) ( -17.52)
>consensus
GUAAAGACAUGUGGAGUGAUCACUUCAUUAUCUACUGUCUUUCAUGCACAACUAUGACUUGCACAGAUAAUAAAAAGUCUCCAUUGAUGU
......((((((((((.((.....))(((((((..(((...(((((......)))))...))).))))))).......))))))..)))) (-13.80 = -13.60 +  -0.20)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 8,360,785 – 8,360,875
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 88.22
Mean single sequence MFE -21.27
Consensus MFE -16.72
Energy contribution -17.36
Covariance contribution 0.64
Combinations/Pair 1.25
Mean z-score -2.21
Structure conservation index 0.79
SVM decision value 1.39
SVM RNA-class probability 0.948847
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8360785 90 - 22407834
ACAUCAAUGGAGACAUUUUAUUAUCUGUGCAAGUCAUAGUUGUGCAUGAAAAACAGUAGAUAAUGAAGUGAUCACUCCACAUGUCUUUAC
((((...(((((.((((((((((((((((....((((.(.....)))))....)).))))))))))))))....))))).))))...... ( -23.00)
>DroSec_CAF1 3443 90 - 1
ACAUCAAUGGAGACGUUUUAUUAUCUUUGCAAGUCAUAAUUGUGCAUGAAAGACAGUAGAUAAUGAAGUGAUCACUCCACAUGUCUUUAC
.......((((((((((((((((((((((....((((........))))....))).))))))))))(((.......)))))))))))). ( -20.90)
>DroSim_CAF1 3461 90 - 1
ACAUCAAUGGAGACGUUUUAUUAUCUUUGCAAGUCAUAGUUGUGCAUGAAAGACAGUAGAUAAUGAAGUGAUCACUCCACAUGUCUUCAC
.......((((((((((((((((((((((....((((.(.....)))))....))).))))))))))(((.......)))))))))))). ( -23.20)
>DroEre_CAF1 3426 87 - 1
ACAUCAUUGGAGAUUCUUUGUUAUCUGUGCAAGUCAUAGUUGUGUAUA-AAGACAGCAGAUAAUGAAGUGAUCACUCCAAAUGUC--UAC
((((..((((((((((((..((((((((....(((.............-..))).))))))))..))).))))..))))))))).--... ( -23.26)
>DroYak_CAF1 3478 90 - 1
ACAUCAAUGGAGAUUUAUUUUUAUCUGUGCAAGUCAUAGUGGUGUAUCAACGACAUUAGAUAAAAAAGUGAUCACUCCAAAUGUCUUUAC
((((...(((((..((((((((..(((((.....)))))((((((.......)))))).....))))))))...))))).))))...... ( -16.00)
>consensus
ACAUCAAUGGAGACGUUUUAUUAUCUGUGCAAGUCAUAGUUGUGCAUGAAAGACAGUAGAUAAUGAAGUGAUCACUCCACAUGUCUUUAC
((((...(((((.(((((((((((((((.....((((........))))......)))))))))))))))....))))).))))...... (-16.72 = -17.36 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:14 2006