Locus 5662

Sequence ID X_DroMel_CAF1
Location 14,643,363 – 14,643,521
Length 158
Max. P 0.919233
window9197 window9198

overview

Window 7

Location 14,643,363 – 14,643,482
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 90.79
Mean single sequence MFE -37.10
Consensus MFE -31.98
Energy contribution -33.18
Covariance contribution 1.20
Combinations/Pair 1.10
Mean z-score -1.63
Structure conservation index 0.86
SVM decision value 1.13
SVM RNA-class probability 0.919233
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14643363 119 - 22224390
GUGUGGUUUUGCAGUCACAAUAAAUGUCGUAAACAACAUUGGUCUAAAGAGGACAUUGGACUCAUACCCACAUCCUGGGACGACUUGGGCAGGUCCUUCAGCACAGGGUCCUUCAAGCG
((((((...((.((((.((((.(((((.(....).))))).((((.....))))))))))))))...)))))).......((.(((((..(((.((((......)))).)))))))))) ( -33.00)
>DroSec_CAF1 112851 118 - 1
GUGUGGU-CUGCAGUCACAAUAAGUGUCGUAAACAACAUGGGUCUAAAGAGGACAUUGGACUCAUACCCACAUCCUGGGAGGACUUGGGCAGGUCCUCCAGCACAGGGUCCUUCAAGCG
(((.(((-.((.((((.((((..((((.(....).))))..((((.....)))))))))))))).))))))(((((((((((((((....)))))))))....)))))).......... ( -41.60)
>DroSim_CAF1 110832 118 - 1
GUGUGGU-CUGCAGUCACAAUAAGUGUCGUAAACAACAUUGGUCUAAAGAGGACAUUGGACUCAUACCCACAUCCUGGGAGGACUUGGGCAGGUCCUCCAGCACAGGGUCCUUCAAGCG
(((.(((-.((.((((.((((.(((((.(....).))))).((((.....)))))))))))))).))))))(((((((((((((((....)))))))))....)))))).......... ( -42.20)
>DroEre_CAF1 106640 116 - 1
GAGUGGU-CUGCAGUCACAAUAAAUGUCGUAAGCAACAUUGGUCUAAAAAGGACAUUGGACUCAUACCCACAUCCUGGAAGGACUUG-GCAGGUCCUUCAGAGCAG-GUCCUUCAAGCG
(((.(..-((((((((.((((.(((((.(....).))))).((((.....))))))))))))............(((.(((((((..-...)))))))))).))))-..).)))..... ( -36.50)
>DroYak_CAF1 109306 107 - 1
GAGUGGU-CUGCAGUCACAAUAAAUGUCGUAAACAACAUUGGUCCAAAGAGGACAUUGGACUCAUACCCACAUCCUGGG-----------AGGUCCUUCAGAACAGGGUCCUUCAAGCG
..((((.-.((.((((.((((.(((((.(....).))))).((((.....))))))))))))))...))))......((-----------(((.((((......)))).)))))..... ( -32.20)
>consensus
GUGUGGU_CUGCAGUCACAAUAAAUGUCGUAAACAACAUUGGUCUAAAGAGGACAUUGGACUCAUACCCACAUCCUGGGAGGACUUGGGCAGGUCCUUCAGCACAGGGUCCUUCAAGCG
..((((...((.((((.((((.(((((.(....).))))).((((.....))))))))))))))...))))(((((((((((((((....)))))))))....)))))).......... (-31.98 = -33.18 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 14,643,402 – 14,643,521
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.84
Mean single sequence MFE -27.92
Consensus MFE -20.30
Energy contribution -20.54
Covariance contribution 0.24
Combinations/Pair 1.12
Mean z-score -1.70
Structure conservation index 0.73
SVM decision value 0.02
SVM RNA-class probability 0.542522
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14643402 119 - 22224390
UUCCA-UACCCUCUAUGCUAUUAUCCAAGUCCUUUAAUUCGUGUGGUUUUGCAGUCACAAUAAAUGUCGUAAACAACAUUGGUCUAAAGAGGACAUUGGACUCAUACCCACAUCCUGGGA
.....-.................((((((((((((......((((..(....)..))))...(((((.(....).))))).......))))))).)))))......((((.....)))). ( -25.50)
>DroSec_CAF1 112890 112 - 1
UUCCAAUACCCU-------AUUAUCCAAGUCCUUUAAUUCGUGUGGU-CUGCAGUCACAAUAAGUGUCGUAAACAACAUGGGUCUAAAGAGGACAUUGGACUCAUACCCACAUCCUGGGA
............-------....((((((((((((.((((((((.((-.(((.(.(((.....))).)))).)).))))))))....))))))).)))))......((((.....)))). ( -32.30)
>DroSim_CAF1 110871 119 - 1
UUCCAAUACCCUAUGUGUUAUUAUCCAAGUCCUUUAAUUCGUGUGGU-CUGCAGUCACAAUAAGUGUCGUAAACAACAUUGGUCUAAAGAGGACAUUGGACUCAUACCCACAUCCUGGGA
........(((.(((((.(((..((((((((((((.((..((((.((-.(((.(.(((.....))).)))).)).))))..))....))))))).)))))...)))..)))))...))). ( -31.40)
>DroEre_CAF1 106677 118 - 1
GCCCA-UACCCCGUAUGCUAUUAUCCAAGUCAUUUAAUUCGAGUGGU-CUGCAGUCACAAUAAAUGUCGUAAGCAACAUUGGUCUAAAAAGGACAUUGGACUCAUACCCACAUCCUGGAA
...((-(((...)))))......((((..((.........))((((.-.((.((((.((((.(((((.(....).))))).((((.....))))))))))))))...))))....)))). ( -22.90)
>DroYak_CAF1 109335 117 - 1
UACUA-UACCCUAUGUGCUAUUAUUCCAGUCCUUUAAUUCGAGUGGU-CUGCAGUCACAAUAAAUGUCGUAAACAACAUUGGUCCAAAGAGGACAUUGGACUCAUACCCACAUCCUGGG-
.....-..(((.(((((.....((((.(((......))).))))(((-.((.((((.((((.(((((.(....).))))).((((.....)))))))))))))).))))))))...)))- ( -27.50)
>consensus
UUCCA_UACCCUAUAUGCUAUUAUCCAAGUCCUUUAAUUCGUGUGGU_CUGCAGUCACAAUAAAUGUCGUAAACAACAUUGGUCUAAAGAGGACAUUGGACUCAUACCCACAUCCUGGGA
.......................((((((((((((.......((((........))))....(((((.(....).))))).......))))))).)))))......((((.....)))). (-20.30 = -20.54 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:29 2006