Locus 4936

Sequence ID	X_DroMel_CAF1
Location	12,864,171 – 12,864,291
Length	120
Max. P	0.971554

overview

Window 0

Location	12,864,171 – 12,864,291
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.92
Mean single sequence MFE	-29.44
Consensus MFE	-26.10
Energy contribution	-26.30
Covariance contribution	0.20
Combinations/Pair	1.15
Mean z-score	-1.66
Structure conservation index	0.89
SVM decision value	1.57
SVM RNA-class probability	0.964494
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12864171 120 + 22224390
CGAAAAUAAGUACGAAUACAUAGUAUUUGGUCCGUUGCCUCUCGAUUUCUUUGGGCAACGGUGCGUAUGAAGGAUUUAACCAAUUAUACGCAAUACUGCAGCGCAACUUUUACAAUAAAU
((......(((((((((((...)))))))..(((((((((...(....)...)))))))))(((((((((.((......))..))))))))).))))....))................. ( -31.30)
>DroSec_CAF1 62293 120 + 1
CGGAAAUAAAUACAAAUACACAGUAUUUGGUCCGUUGCCUCUCGAUUUCUUUGGGCAACGGUGCGUAUGAGGGAUUUAACCAAUUAUACGCAAUACUGCAGCGCAAAUUGUACAAUAAGU
............(((((((...)))))))..(((((((((...(....)...)))))))))(((((((((((.......))..)))))))))....(((((......)))))........ ( -31.60)
>DroSim_CAF1 65578 120 + 1
CGGAAAUAAAUACAAAUACACAGUAUUUGGUCCGUUGCCUCUCGAUUUCUUUGGGCAACGGUGCGUAUGAGGGAUUUAACCAAUUAUACGCAAUACUGCAGCGCAAAUUGUACAAUAAGU
............(((((((...)))))))..(((((((((...(....)...)))))))))(((((((((((.......))..)))))))))....(((((......)))))........ ( -31.60)
>DroEre_CAF1 66056 120 + 1
CGAAAAUAAAUACAAAUACACAGUAUUUGGUUCAUUGCCUCUCGGUUUCUUUGGCCAACGGUGCGUAUGAGGGAUUUAACCAAUUACACGCAAUGCUGCCACGCAAAUUUUACAACAAAC
..(((((...............(((.((((((...(.((((..((((.....)))).(((...)))..)))).)...)))))).)))......(((......))).)))))......... ( -21.60)
>DroYak_CAF1 73770 120 + 1
CGAAAAGAAAUACAAAAACAGAGUAUUUGCUCCGUUGCCUCUCGAUUUCUUUGGGCAACGGUGCGUAUGGGGGAUUUAACCAAUUAUACGCAAUACUGCAGCGCAAAUUUUACAAUAAAU
......................((((((((.(((((((((...(....)...)))))))))((((((((.((.......))...))))))))..........)))))...)))....... ( -31.10)
>consensus
CGAAAAUAAAUACAAAUACACAGUAUUUGGUCCGUUGCCUCUCGAUUUCUUUGGGCAACGGUGCGUAUGAGGGAUUUAACCAAUUAUACGCAAUACUGCAGCGCAAAUUUUACAAUAAAU
....................(((((((....(((((((((...(....)...))))))))).((((((((.((......))..)))))))))))))))...................... (-26.10 = -26.30 +   0.20)

alignment

secondary structure

dotplot

Window 1

Location	12,864,171 – 12,864,291
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.92
Mean single sequence MFE	-32.44
Consensus MFE	-25.84
Energy contribution	-26.20
Covariance contribution	0.36
Combinations/Pair	1.09
Mean z-score	-2.29
Structure conservation index	0.80
SVM decision value	1.68
SVM RNA-class probability	0.971554
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12864171 120 - 22224390
AUUUAUUGUAAAAGUUGCGCUGCAGUAUUGCGUAUAAUUGGUUAAAUCCUUCAUACGCACCGUUGCCCAAAGAAAUCGAGAGGCAACGGACCAAAUACUAUGUAUUCGUACUUAUUUUCG
...........((((.(((.(((((((((((((((....((......))...)))))).((((((((....(....)....))))))))....)))))..))))..)))))))....... ( -31.80)
>DroSec_CAF1 62293 120 - 1
ACUUAUUGUACAAUUUGCGCUGCAGUAUUGCGUAUAAUUGGUUAAAUCCCUCAUACGCACCGUUGCCCAAAGAAAUCGAGAGGCAACGGACCAAAUACUGUGUAUUUGUAUUUAUUUCCG
.......((((((..(((...((((((((((((((....((......))...)))))).((((((((....(....)....))))))))....))))))))))).))))))......... ( -35.50)
>DroSim_CAF1 65578 120 - 1
ACUUAUUGUACAAUUUGCGCUGCAGUAUUGCGUAUAAUUGGUUAAAUCCCUCAUACGCACCGUUGCCCAAAGAAAUCGAGAGGCAACGGACCAAAUACUGUGUAUUUGUAUUUAUUUCCG
.......((((((..(((...((((((((((((((....((......))...)))))).((((((((....(....)....))))))))....))))))))))).))))))......... ( -35.50)
>DroEre_CAF1 66056 120 - 1
GUUUGUUGUAAAAUUUGCGUGGCAGCAUUGCGUGUAAUUGGUUAAAUCCCUCAUACGCACCGUUGGCCAAAGAAACCGAGAGGCAAUGAACCAAAUACUGUGUAUUUGUAUUUAUUUUCG
(((..(((.....(((...(((((((..(((((((....((......))...)))))))..))).))))..))).((....)))))..)))(((((((...)))))))............ ( -30.00)
>DroYak_CAF1 73770 120 - 1
AUUUAUUGUAAAAUUUGCGCUGCAGUAUUGCGUAUAAUUGGUUAAAUCCCCCAUACGCACCGUUGCCCAAAGAAAUCGAGAGGCAACGGAGCAAAUACUCUGUUUUUGUAUUUCUUUUCG
............((((((..........(((((((....((......))...)))))))((((((((....(....)....)))))))).))))))........................ ( -29.40)
>consensus
AUUUAUUGUAAAAUUUGCGCUGCAGUAUUGCGUAUAAUUGGUUAAAUCCCUCAUACGCACCGUUGCCCAAAGAAAUCGAGAGGCAACGGACCAAAUACUGUGUAUUUGUAUUUAUUUUCG
...(((((((..........))))))).(((((((....((......))...)))))))((((((((....(....)....))))))))..(((((((...)))))))............ (-25.84 = -26.20 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:28 2006