Locus 6453

Sequence ID	X_DroMel_CAF1
Location	16,169,592 – 16,169,750
Length	158
Max. P	0.994337

overview

Window 0

Location	16,169,592 – 16,169,710
Length	118
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	91.18
Mean single sequence MFE	-16.28
Consensus MFE	-14.20
Energy contribution	-14.80
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.31
Structure conservation index	0.87
SVM decision value	0.32
SVM RNA-class probability	0.686555
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16169592 118 - 22224390
AUUAUUUACUUUCCAUGUAAAUAAAUAUGUAGAUACUCGUUAUCUACAGAUACCGAUAAAUUGAUGUCAAUACCACACAAUAUAAUACUAAAUCCUGUCCAAAGUGAAUUCUCUUGUU
.((((((((.......))))))))...((((((((.....))))))))((((.(((....))).))))........................((((......)).))........... ( -16.60)
>DroSec_CAF1 9571 116 - 1
UUUAUUUACUUUCCAUGUAAAUAAAUAUGUAGAUACUCGUUAUCUACAGAUACCGAUAAAUUGAUGUCAAUAACAC--ACUAUAAUACUAAAUCCUAUCCAAAGUGAAUUCUCUUGUU
(((((((((.......)))))))))..((((((((.....))))))))((((.(((....))).)))).......(--(((.....................))))............ ( -17.60)
>DroSim_CAF1 9948 116 - 1
UUUAUUUACUUUCCAUGUAAAUAAAUAUGUAGAUACUCGUUAUCUACAGAUACCGAUAAAUUGAUGUCAAUAACAC--ACUAUAAUACUAAAUCCUAUCCACAGUGAAUUCUCUUGUU
(((((((((.......)))))))))..((((((((.....))))))))((((.(((....))).)))).......(--(((.....................))))............ ( -17.40)
>DroEre_CAF1 9992 116 - 1
UUCAUUUACUUUCCAUGUAAACAAACAUGUAGAUACUCGUUAUCUACAGAUACCGAUAAAUUGAUGUCAAUACCAG--AAUAUAAUACUAAAUCCUGGCCAAAAUAAAGUCUCUUAUU
....(((((.......)))))......((((((((.....))))))))((((.(((....))).))))....((((--.((.((....)).)).)))).................... ( -15.30)
>DroYak_CAF1 10573 116 - 1
UUCAUUUACUUUCCAUGUAAAUAAACGUGUAGAUACUCGUUAUCUACAGAUACCGAUAAAUUGAUGUCAAUACCAG--AAUAUAAUACCAAAUCCUGACCAAAAGAUAGUCUCUUAUU
(((((((((.......)))))).....((((((((.....))))))))((((.(((....))).)))).......)--))......................((((.....))))... ( -14.50)
>consensus
UUUAUUUACUUUCCAUGUAAAUAAAUAUGUAGAUACUCGUUAUCUACAGAUACCGAUAAAUUGAUGUCAAUACCAC__AAUAUAAUACUAAAUCCUGUCCAAAGUGAAUUCUCUUGUU
.((((((((.......))))))))...((((((((.....))))))))((((.(((....))).)))).................................................. (-14.20 = -14.80 +   0.60)

alignment

secondary structure

dotplot

Window 1

Location	16,169,630 – 16,169,750
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.28
Mean single sequence MFE	-23.44
Consensus MFE	-21.98
Energy contribution	-22.78
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-1.77
Structure conservation index	0.94
SVM decision value	2.47
SVM RNA-class probability	0.994337
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16169630 120 - 22224390
AAAAAAAAAAAGUAUCUGUCGGAACUGGGGCGUUAUCCUUAUUAUUUACUUUCCAUGUAAAUAAAUAUGUAGAUACUCGUUAUCUACAGAUACCGAUAAAUUGAUGUCAAUACCACACAA
................((((((...(((((......)))))((((((((.......))))))))...((((((((.....))))))))....)))))).((((....))))......... ( -23.80)
>DroSec_CAF1 9609 110 - 1
A--------AAGUAUCUGUCGGAACUGGGGCGUUAUCCUUUUUAUUUACUUUCCAUGUAAAUAAAUAUGUAGAUACUCGUUAUCUACAGAUACCGAUAAAUUGAUGUCAAUAACAC--AC
.--------..((((((((.(((((.(((...((((....(((((((((.......)))))))))...))))...)))))).)).)))))))).((((......))))........--.. ( -24.30)
>DroSim_CAF1 9986 110 - 1
A--------AAGUAUCUGUCGGAACUGGGGCGUUAUCCUUUUUAUUUACUUUCCAUGUAAAUAAAUAUGUAGAUACUCGUUAUCUACAGAUACCGAUAAAUUGAUGUCAAUAACAC--AC
.--------..((((((((.(((((.(((...((((....(((((((((.......)))))))))...))))...)))))).)).)))))))).((((......))))........--.. ( -24.30)
>DroEre_CAF1 10030 110 - 1
A--------AAGUAUCUGUCGGAAUUGGGGCGUUAUCCUUUUCAUUUACUUUCCAUGUAAACAAACAUGUAGAUACUCGUUAUCUACAGAUACCGAUAAAUUGAUGUCAAUACCAG--AA
.--------..(((((((...(((..(((......)))..)))..........(((((......))))))))))))(((.((((....)))).)))...((((....)))).....--.. ( -21.80)
>DroYak_CAF1 10611 110 - 1
A--------AAGUAUCUGUCGGAAUUGGGGCGUUAUCCUUUUCAUUUACUUUCCAUGUAAAUAAACGUGUAGAUACUCGUUAUCUACAGAUACCGAUAAAUUGAUGUCAAUACCAG--AA
.--------..((((((((.((((..(((......)))..)))((((((.......)))))).((((.((....)).))))..).)))))))).((((......))))........--.. ( -23.00)
>consensus
A________AAGUAUCUGUCGGAACUGGGGCGUUAUCCUUUUUAUUUACUUUCCAUGUAAAUAAAUAUGUAGAUACUCGUUAUCUACAGAUACCGAUAAAUUGAUGUCAAUACCAC__AA
...........((((((((.(((..((((...((((....(((((((((.......)))))))))...))))...))))...))))))))))).((((......))))............ (-21.98 = -22.78 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:12 2006