Locus 4346

Sequence ID	X_DroMel_CAF1
Location	11,439,900 – 11,440,047
Length	147
Max. P	0.717850

overview

Window 0

Location	11,439,900 – 11,440,007
Length	107
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	80.64
Mean single sequence MFE	-22.04
Consensus MFE	-10.48
Energy contribution	-11.98
Covariance contribution	1.50
Combinations/Pair	1.12
Mean z-score	-2.65
Structure conservation index	0.48
SVM decision value	0.10
SVM RNA-class probability	0.582102
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11439900 107 - 22224390
CUAUCUGCUAUUUUCCCAUAUCAGAAAGACUGUUAUCUGUGACAU-----AUCAAACAUGAUAUUUCAAAAAUAUCAAAAUGAUACAGUCCCCUCCGGGUUCAAG-----UUGA---ACU
...((((.(((......))).))))..((((((.(((..(((.((-----((((....)))))).))).............))))))))).......(((((...-----..))---))) ( -20.56)
>DroSec_CAF1 9651 107 - 1
CUAUCAGGUAUUUUCCCAUAUCAGAAAGACUGUUAUCUCUGACAU-----AUCAAACAUGAUAUUUCAAAAAUAUCAAAAUGAUACAGUCCCCUUCGAGUUCAAG-----UUGA---ACU
......(((((......))))).(((.(((((.......(((.((-----((((....)))))).)))....((((.....)))))))))...))).(((((...-----..))---))) ( -19.90)
>DroEre_CAF1 7486 110 - 1
CUAUCUGGUAUUUUCCCAUAUCAGAAGGGCUGUUAUCUGUGACAU-----AUCAAACAUGAUAUUUCAAAAAUAUCAAAAUGAUACAGUC-----CAAGUUCAAGACCCGUUCAACUAUU
...((((((((......)))))))).(((((...(..((.(((.(-----((((....(((((((.....)))))))...)))))..)))-----))..)...)).)))........... ( -25.30)
>DroYak_CAF1 6206 115 - 1
CUAUCAGGUAUUUUCCCAUAUCAGAAACGCUCUUAUCUGCGACAUAUCAUAUCAAACAUGAUUUUUCAAAGAUAUCAUAAUGACACGGAC-----CAAGUUCAAGAUCCGUUUCAUUAGU
.((((.(((((......))))).(((((((........)))....(((((.......))))).))))...))))...((((((.(((((.-----(........).))))).)))))).. ( -22.40)
>consensus
CUAUCAGGUAUUUUCCCAUAUCAGAAAGACUGUUAUCUGUGACAU_____AUCAAACAUGAUAUUUCAAAAAUAUCAAAAUGAUACAGUC_____CAAGUUCAAG_____UUGA___ACU
...((((((((......))))))))..((((((.(((...((.........)).....(((((((.....)))))))....))))))))).............................. (-10.48 = -11.98 +   1.50)

alignment

secondary structure

dotplot

Window 1

Location	11,439,932 – 11,440,047
Length	115
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	80.06
Mean single sequence MFE	-18.30
Consensus MFE	-10.61
Energy contribution	-11.92
Covariance contribution	1.31
Combinations/Pair	1.08
Mean z-score	-2.07
Structure conservation index	0.58
SVM decision value	0.39
SVM RNA-class probability	0.717850
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11439932 115 - 22224390
GCACAGCUCAAUGAAUAAAAAUAUCAACGAAAAUGGUCAUCUAUCUGCUAUUUUCCCAUAUCAGAAAGACUGUUAUCUGUGACAU-----AUCAAACAUGAUAUUUCAAAAAUAUCAAAA
.(((((......................((((((((.((......))))))))))..(((.(((.....))).))))))))....-----........(((((((.....)))))))... ( -17.90)
>DroSec_CAF1 9683 114 - 1
GCACAGCUCAAUGAA-AAUAAUACCAACGAAAAUGGUCAUCUAUCAGGUAUUUUCCCAUAUCAGAAAGACUGUUAUCUCUGACAU-----AUCAAACAUGAUAUUUCAAAAAUAUCAAAA
...........(((.-............((.(((((((.(((....(((((......))))))))..))))))).))..(((.((-----((((....)))))).)))......)))... ( -15.10)
>DroEre_CAF1 7521 114 - 1
GGACAGCUCAAUGAA-AACAAUAUGAACGAAAAUGGUCAUCUAUCUGGUAUUUUCCCAUAUCAGAAGGGCUGUUAUCUGUGACAU-----AUCAAACAUGAUAUUUCAAAAAUAUCAAAA
.((((((((......-......((((.(......).))))...((((((((......)))))))).)))))))).....(((.((-----((((....)))))).)))............ ( -25.80)
>DroYak_CAF1 6241 95 - 1
-------------------------AAAGAAAAUGCUCAUCUAUCAGGUAUUUUCCCAUAUCAGAAACGCUCUUAUCUGCGACAUAUCAUAUCAAACAUGAUUUUUCAAAGAUAUCAUAA
-------------------------...(((((((((.........)))))))))..(((((.....(((........)))....(((((.......)))))........)))))..... ( -14.40)
>consensus
GCACAGCUCAAUGAA_AA_AAUAUCAACGAAAAUGGUCAUCUAUCAGGUAUUUUCCCAUAUCAGAAAGACUGUUAUCUGUGACAU_____AUCAAACAUGAUAUUUCAAAAAUAUCAAAA
............................((.(((((((.....((((((((......))))))))..))))))).)).....................(((((((.....)))))))... (-10.61 = -11.92 +   1.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:43 2006