Locus 3215

Sequence ID	3L_DroMel_CAF1
Location	9,383,959 – 9,384,050
Length	91
Max. P	0.999984

overview

Window 5

Location	9,383,959 – 9,384,050
Length	91
Sequences	5
Columns	91
Reading direction	forward
Mean pairwise identity	93.41
Mean single sequence MFE	-28.01
Consensus MFE	-27.72
Energy contribution	-27.92
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.64
Structure conservation index	0.99
SVM decision value	5.36
SVM RNA-class probability	0.999984
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9383959 91 + 23771897
UUUCAAUAAGAUAUCCUUUUGUUUCUCAUUCGUUCACUGGGAUACGUUUGAAUUCGCCAUGCGGCGAGUGUGUCGUGCGGCGAAUUCGUUA
...........((((((..((...(......)..))..)))))).....(((((((((..((((((....))))))..))))))))).... ( -28.80)
>DroSec_CAF1 6900 91 + 1
UUUCAAUAAGAUAUCCUUUUGUUUUUCAUUCGUUCACUGGGAUACGUUUGAAUUCGCCAUGCGGCGAGUGUGUCGUGCGGCGAAUUCGUUA
...........((((((..((.............))..)))))).....(((((((((..((((((....))))))..))))))))).... ( -28.42)
>DroSim_CAF1 6399 91 + 1
UUUUAAUAAGAUAUCCUUUUGUUUUUCAUUCGUUCACUGGGAUACGUUUGAAUUCGCCAUGCGGCGAGUGUGUCGUGCGGCGAAUUCGUUA
...........((((((..((.............))..)))))).....(((((((((..((((((....))))))..))))))))).... ( -28.42)
>DroEre_CAF1 7339 91 + 1
UUUCAAUAAGAUAUCCUUUUGUUUUUCAUUCGUUCACUGGGAUAAGCUGGAAUUCGCCUUGCGGCGAAUGUGUCGUUCGGCGAAUUCGUUA
...........((((((..((.............))..)))))).....(((((((((..((((((....))))))..))))))))).... ( -28.32)
>DroYak_CAF1 4771 91 + 1
UUUCAAUAAGAUAUCCUUUUGUUGUUCCUUCGUUCACUGGGAUAAGCUUGAAUUCGCCUUGCGGCGAACGUGUCGUGCGGCGAUUUCGUAA
.......(((.((((((..((.((......))..))..))))))..)))(((.(((((.(((((((....))))))).))))).))).... ( -26.10)
>consensus
UUUCAAUAAGAUAUCCUUUUGUUUUUCAUUCGUUCACUGGGAUACGUUUGAAUUCGCCAUGCGGCGAGUGUGUCGUGCGGCGAAUUCGUUA
...........((((((..((.............))..)))))).....(((((((((..((((((....))))))..))))))))).... (-27.72 = -27.92 +   0.20)

alignment

secondary structure

dotplot

Window 6

Location	9,383,959 – 9,384,050
Length	91
Sequences	5
Columns	91
Reading direction	reverse
Mean pairwise identity	93.41
Mean single sequence MFE	-20.73
Consensus MFE	-17.96
Energy contribution	-18.12
Covariance contribution	0.16
Combinations/Pair	1.04
Mean z-score	-2.13
Structure conservation index	0.87
SVM decision value	2.53
SVM RNA-class probability	0.995036
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9383959 91 - 23771897
UAACGAAUUCGCCGCACGACACACUCGCCGCAUGGCGAAUUCAAACGUAUCCCAGUGAACGAAUGAGAAACAAAAGGAUAUCUUAUUGAAA
....(((((((((((.(((.....)))..))..)))))))))....((((((...((..(......)...))...)))))).......... ( -21.50)
>DroSec_CAF1 6900 91 - 1
UAACGAAUUCGCCGCACGACACACUCGCCGCAUGGCGAAUUCAAACGUAUCCCAGUGAACGAAUGAAAAACAAAAGGAUAUCUUAUUGAAA
....(((((((((((.(((.....)))..))..)))))))))....((((((...((.............))...)))))).......... ( -21.32)
>DroSim_CAF1 6399 91 - 1
UAACGAAUUCGCCGCACGACACACUCGCCGCAUGGCGAAUUCAAACGUAUCCCAGUGAACGAAUGAAAAACAAAAGGAUAUCUUAUUAAAA
....(((((((((((.(((.....)))..))..)))))))))....((((((...((.............))...)))))).......... ( -21.32)
>DroEre_CAF1 7339 91 - 1
UAACGAAUUCGCCGAACGACACAUUCGCCGCAAGGCGAAUUCCAGCUUAUCCCAGUGAACGAAUGAAAAACAAAAGGAUAUCUUAUUGAAA
......(((((...........(((((((....)))))))....(((......)))...)))))......(((.(((....))).)))... ( -18.50)
>DroYak_CAF1 4771 91 - 1
UUACGAAAUCGCCGCACGACACGUUCGCCGCAAGGCGAAUUCAAGCUUAUCCCAGUGAACGAAGGAACAACAAAAGGAUAUCUUAUUGAAA
..(((...(((.....)))..)))(((((....))))).(((((...(((((...((..(....)..))......))))).....))))). ( -21.00)
>consensus
UAACGAAUUCGCCGCACGACACACUCGCCGCAUGGCGAAUUCAAACGUAUCCCAGUGAACGAAUGAAAAACAAAAGGAUAUCUUAUUGAAA
....(((((((((((.(((.....)))..))..))))))))).((..(((((...((.............))...)))))..))....... (-17.96 = -18.12 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:15 2006