Locus 3948

Sequence ID 2R_DroMel_CAF1
Location 13,029,054 – 13,029,147
Length 93
Max. P 0.901535
window6374 window6375

overview

Window 4

Location 13,029,054 – 13,029,147
Length 93
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 73.23
Mean single sequence MFE -21.75
Consensus MFE -9.45
Energy contribution -8.83
Covariance contribution -0.62
Combinations/Pair 1.25
Mean z-score -2.40
Structure conservation index 0.43
SVM decision value 0.56
SVM RNA-class probability 0.782522
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13029054 93 + 20766785
-AUUUCCCCAGUUGGGG--AUAUCGAUUAUUGCCAAAUUUGUGUAAACAUCGAUGGUAUCGCUG------------UACCGAGACAACAAUAAUAGAAAUAAA--UUAAG
-...(((((....))))--).((((((..((((((....)).))))..))))))(((((....)------------)))).......................--..... ( -20.20)
>DroSec_CAF1 12283 93 + 1
-UUUUCCCCAGUUGGGG--CUAUCGAUUAUUGCCAAAUUUGUGUAAACAUCGAUUGUAUCGCUG------------UACCGAGACAACAAUAAUAGAAAUAAA--UUAAG
-....((((....))))--((((((((..((((((....)).))))..)))))((((.(((...------------...))).))))......))).......--..... ( -17.00)
>DroSim_CAF1 8683 93 + 1
-AUUUCUCCAGUUGGAG--CUAUCGAUUAUUGCCAAAUUUGUGUAAACAUCGAUUGUAUCGCUG------------UACCGAGACAACAAUAAUAGAAAUAAA--UUAAG
-...((((((((.((.(--(.((((((..((((((....)).))))..)))))).)).))))))------------....))))...................--..... ( -15.70)
>DroAna_CAF1 8661 107 + 1
UGCGUCCAGAGAUGGAGAAACAUCGAUAUUUUUAAACAUUUUAAAAACAUCGAUUA-AUCGAUGUUUCUCCACCUCUAUCGCAAUAACG--AAUAAAAAUAAAAAUCUGC
((((...((((.(((((((((((((((.(((((((.....))))))).)))((...-.)))))))))))))).))))..))))......--................... ( -34.10)
>consensus
_AUUUCCCCAGUUGGAG__AUAUCGAUUAUUGCCAAAUUUGUGUAAACAUCGAUUGUAUCGCUG____________UACCGAGACAACAAUAAUAGAAAUAAA__UUAAG
.....((((....))))....((((((..((((((....)).))))..))))))........................................................ ( -9.45 =  -8.83 +  -0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,029,054 – 13,029,147
Length 93
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 73.23
Mean single sequence MFE -26.02
Consensus MFE -9.07
Energy contribution -9.82
Covariance contribution 0.75
Combinations/Pair 1.20
Mean z-score -3.31
Structure conservation index 0.35
SVM decision value 1.02
SVM RNA-class probability 0.901535
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13029054 93 - 20766785
CUUAA--UUUAUUUCUAUUAUUGUUGUCUCGGUA------------CAGCGAUACCAUCGAUGUUUACACAAAUUUGGCAAUAAUCGAUAU--CCCCAACUGGGGAAAU-
.....--...........(((((((((......)------------))))))))..(((((((((..((......))..))).)))))).(--((((....)))))...- ( -21.60)
>DroSec_CAF1 12283 93 - 1
CUUAA--UUUAUUUCUAUUAUUGUUGUCUCGGUA------------CAGCGAUACAAUCGAUGUUUACACAAAUUUGGCAAUAAUCGAUAG--CCCCAACUGGGGAAAA-
.....--.......((((((((((((((...(((------------((.((((...)))).)))....))......))))))))).)))))--((((....))))....- ( -20.70)
>DroSim_CAF1 8683 93 - 1
CUUAA--UUUAUUUCUAUUAUUGUUGUCUCGGUA------------CAGCGAUACAAUCGAUGUUUACACAAAUUUGGCAAUAAUCGAUAG--CUCCAACUGGAGAAAU-
.....--.......((((((((((((((...(((------------((.((((...)))).)))....))......))))))))).)))))--((((....))))....- ( -18.60)
>DroAna_CAF1 8661 107 - 1
GCAGAUUUUUAUUUUUAUU--CGUUAUUGCGAUAGAGGUGGAGAAACAUCGAU-UAAUCGAUGUUUUUAAAAUGUUUAAAAAUAUCGAUGUUUCUCCAUCUCUGGACGCA
((................(--(((....))))((((((((((((((((((((.-...))(((((((((((.....)))))))))))))))))))))))))))))...)). ( -43.20)
>consensus
CUUAA__UUUAUUUCUAUUAUUGUUGUCUCGGUA____________CAGCGAUACAAUCGAUGUUUACACAAAUUUGGCAAUAAUCGAUAG__CCCCAACUGGGGAAAU_
..................((((((((....................))))))))..((((((.......((....))......))))))....((((....))))..... ( -9.07 =  -9.82 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:03 2006