Locus 5978

Sequence ID X_DroMel_CAF1
Location 15,380,409 – 15,380,527
Length 118
Max. P 0.987422
window9708 window9709

overview

Window 8

Location 15,380,409 – 15,380,527
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.61
Mean single sequence MFE -29.18
Consensus MFE -27.64
Energy contribution -28.90
Covariance contribution 1.26
Combinations/Pair 1.03
Mean z-score -1.52
Structure conservation index 0.95
SVM decision value 1.72
SVM RNA-class probability 0.974004
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15380409 118 + 22224390
UGGGAUGCAUGUAAUUGGAAAGGGAUGGACAGCUUGUUAUUGUUCAUGUCGCUGCCACAUUAAAUGGGAAUUGAAAAAUUCAUUUUUAAACAUUUGUUUACAUGACUCCAA--GCAUCAG
..(((..(((((((.(((...((.((((((((.......)))))))).))....)))..(((((...(((((....)))))...)))))........)))))))..)))..--....... ( -29.80)
>DroSec_CAF1 22652 118 + 1
NNGGAUGCAUGUAAUUGGAAAGGGAUGGACAGCUUGUUAUUGUUCAUGUCGCUGCCACAUUAAAUGGGAAUUGAAAAAUUCAUUUUUAAACAUUUGUUUACAUGACUCCAA--GCAGCCG
..(((..(((((((.(((...((.((((((((.......)))))))).))....)))..(((((...(((((....)))))...)))))........)))))))..)))..--....... ( -29.80)
>DroSim_CAF1 15679 118 + 1
UGGGAUGCAUGUAAUUGGAAAGGGAUGGACAGCUUGUUAUUGUUCAUGUCGCUGCCACAUUAAAUGGGAAUUGAAAAAUUCAUUUUUAAACAUUUGUUUACAUGACUCCAA--GCAGCCG
..(((..(((((((.(((...((.((((((((.......)))))))).))....)))..(((((...(((((....)))))...)))))........)))))))..)))..--....... ( -29.80)
>DroEre_CAF1 20253 115 + 1
UGGGAUGCAUGUAAUUGGAAAGGGAUGGACAGCUUGUUAUUGUUCAUGUUGCUGCCACAUUAAAUGGGAAUUGAAAAAUUCAUUUUUAAACAUUUGUUUACAUGACUCCAA--GCA---G
..(((..(((((((.(((...((.((((((((.......)))))))).))....)))..(((((...(((((....)))))...)))))........)))))))..)))..--...---. ( -28.10)
>DroYak_CAF1 12405 117 + 1
UGGGAUGCAUGUAAUUGGAAGGGGAUGGACAGCUUGUUAUUGUUCAUGUUGCUGCCACAUUAAAUGGGAAUUGAAAAAUUCAUUUUUAAACAUUUGUUUACAUGACUCCAACAGAA---G
..(((..(((((((.(((.((.((((((((((.......)))))))).)).)).)))..(((((...(((((....)))))...)))))........)))))))..))).......---. ( -28.40)
>consensus
UGGGAUGCAUGUAAUUGGAAAGGGAUGGACAGCUUGUUAUUGUUCAUGUCGCUGCCACAUUAAAUGGGAAUUGAAAAAUUCAUUUUUAAACAUUUGUUUACAUGACUCCAA__GCA_C_G
..(((..(((((((.(((...((.((((((((.......)))))))).))....)))..(((((...(((((....)))))...)))))........)))))))..)))........... (-27.64 = -28.90 +   1.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 15,380,409 – 15,380,527
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.61
Mean single sequence MFE -22.51
Consensus MFE -20.39
Energy contribution -20.39
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.78
Structure conservation index 0.91
SVM decision value 2.08
SVM RNA-class probability 0.987422
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15380409 118 - 22224390
CUGAUGC--UUGGAGUCAUGUAAACAAAUGUUUAAAAAUGAAUUUUUCAAUUCCCAUUUAAUGUGGCAGCGACAUGAACAAUAACAAGCUGUCCAUCCCUUUCCAAUUACAUGCAUCCCA
..(((((--((((((((((.(((((....)))))...))))...................(((.((((((.................)))))))))....))))))......)))))... ( -24.93)
>DroSec_CAF1 22652 118 - 1
CGGCUGC--UUGGAGUCAUGUAAACAAAUGUUUAAAAAUGAAUUUUUCAAUUCCCAUUUAAUGUGGCAGCGACAUGAACAAUAACAAGCUGUCCAUCCCUUUCCAAUUACAUGCAUCCNN
.((.(((--((((((((((.(((((....)))))...))))...................(((.((((((.................)))))))))....))))))......))).)).. ( -23.13)
>DroSim_CAF1 15679 118 - 1
CGGCUGC--UUGGAGUCAUGUAAACAAAUGUUUAAAAAUGAAUUUUUCAAUUCCCAUUUAAUGUGGCAGCGACAUGAACAAUAACAAGCUGUCCAUCCCUUUCCAAUUACAUGCAUCCCA
.((.(((--((((((((((.(((((....)))))...))))...................(((.((((((.................)))))))))....))))))......))).)).. ( -23.93)
>DroEre_CAF1 20253 115 - 1
C---UGC--UUGGAGUCAUGUAAACAAAUGUUUAAAAAUGAAUUUUUCAAUUCCCAUUUAAUGUGGCAGCAACAUGAACAAUAACAAGCUGUCCAUCCCUUUCCAAUUACAUGCAUCCCA
.---(((--((((((((((.(((((....)))))...))))...................(((.((((((.................)))))))))....))))))......)))..... ( -20.13)
>DroYak_CAF1 12405 117 - 1
C---UUCUGUUGGAGUCAUGUAAACAAAUGUUUAAAAAUGAAUUUUUCAAUUCCCAUUUAAUGUGGCAGCAACAUGAACAAUAACAAGCUGUCCAUCCCCUUCCAAUUACAUGCAUCCCA
.---....(((((((((((.(((((....)))))...))))...................(((.((((((.................)))))))))....)))))))............. ( -20.43)
>consensus
C_G_UGC__UUGGAGUCAUGUAAACAAAUGUUUAAAAAUGAAUUUUUCAAUUCCCAUUUAAUGUGGCAGCGACAUGAACAAUAACAAGCUGUCCAUCCCUUUCCAAUUACAUGCAUCCCA
...........(((..(((((((........(((((...(((((....)))))...))))).((((((((.................)))).))))..........)))))))..))).. (-20.39 = -20.39 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:06 2006