Locus 1896

Sequence ID X_DroMel_CAF1
Location 5,264,807 – 5,264,908
Length 101
Max. P 0.996524
window3081 window3082

overview

Window 1

Location 5,264,807 – 5,264,908
Length 101
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 92.38
Mean single sequence MFE -30.03
Consensus MFE -30.01
Energy contribution -30.23
Covariance contribution 0.23
Combinations/Pair 1.06
Mean z-score -3.82
Structure conservation index 1.00
SVM decision value 2.71
SVM RNA-class probability 0.996524
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5264807 101 + 22224390
-----UCUGCGUGUCUCGGCAUGCAAACAAACAUGUUUAGGCAUGUUU-UUUGUGUGCCUUUCGGUUAUUUGUUAUUUUCUGACUUUGAACUUGCACAUUGUUGUUG
-----.....((((...((((((((((.((((((((....))))))))-))))))))))....((((....((((.....))))....)))).)))).......... ( -28.80)
>DroSim_CAF1 20126 102 + 1
-----UGUGCGUGUCUCGGUAUGCAAACAAACAUGUUUAGGCAUGUUUUUUUGUGUGCCUUUCGGUUAUUUGUUAUUUUCUGACUUUGAACUUGCACAUUGUUGUUG
-----((((((.((.((((((((((((.((((((((....)))))))).))))))))))..((((..(........)..))))....)))).))))))......... ( -31.20)
>DroYak_CAF1 21183 106 + 1
GUGUCUGUGCGUGUCUCGGUAUGCAAACAAACAUGUUUAGGCAUGUUU-UGUGUAUGCCUUUUGGUUAUUUGUUAUUUUUUGACUUUGAACUUGCACAUUGUUGUUG
.....((((((......((((((((...((((((((....))))))))-..))))))))....((((....((((.....))))....))))))))))......... ( -30.10)
>consensus
_____UGUGCGUGUCUCGGUAUGCAAACAAACAUGUUUAGGCAUGUUU_UUUGUGUGCCUUUCGGUUAUUUGUUAUUUUCUGACUUUGAACUUGCACAUUGUUGUUG
.....((((((......((((((((((.((((((((....)))))))).))))))))))....((((....((((.....))))....))))))))))......... (-30.01 = -30.23 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 5,264,807 – 5,264,908
Length 101
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 92.38
Mean single sequence MFE -18.19
Consensus MFE -15.93
Energy contribution -16.60
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.73
Structure conservation index 0.88
SVM decision value 1.22
SVM RNA-class probability 0.931950
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5264807 101 - 22224390
CAACAACAAUGUGCAAGUUCAAAGUCAGAAAAUAACAAAUAACCGAAAGGCACACAAA-AAACAUGCCUAAACAUGUUUGUUUGCAUGCCGAGACACGCAGA-----
...........(((...(((.......)))..................((((..((((-(((((((......))))))).))))..)))).......)))..----- ( -17.90)
>DroSim_CAF1 20126 102 - 1
CAACAACAAUGUGCAAGUUCAAAGUCAGAAAAUAACAAAUAACCGAAAGGCACACAAAAAAACAUGCCUAAACAUGUUUGUUUGCAUACCGAGACACGCACA-----
.........(((((...(((......................((....))....((((.(((((((......))))))).))))......)))....)))))----- ( -19.60)
>DroYak_CAF1 21183 106 - 1
CAACAACAAUGUGCAAGUUCAAAGUCAAAAAAUAACAAAUAACCAAAAGGCAUACACA-AAACAUGCCUAAACAUGUUUGUUUGCAUACCGAGACACGCACAGACAC
.........(((((..(((.....((.......((((((((......((((((.....-....)))))).....))))))))........)))))..)))))..... ( -17.06)
>consensus
CAACAACAAUGUGCAAGUUCAAAGUCAGAAAAUAACAAAUAACCGAAAGGCACACAAA_AAACAUGCCUAAACAUGUUUGUUUGCAUACCGAGACACGCACA_____
.........(((((...(((......................((....))....((((.(((((((......))))))).))))......)))....)))))..... (-15.93 = -16.60 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:18 2006