Locus 457

Sequence ID	3L_DroMel_CAF1
Location	1,331,726 – 1,331,846
Length	120
Max. P	0.999978

overview

Window 6

Location	1,331,726 – 1,331,846
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.57
Mean single sequence MFE	-36.24
Consensus MFE	-33.64
Energy contribution	-34.24
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-3.53
Structure conservation index	0.93
SVM decision value	5.19
SVM RNA-class probability	0.999978
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1331726 120 + 23771897
CCAAAGCGUGUCGUGCAAACCGUUUUAUGGUUAUUAUGUUUCUGCUUUACCUUGCAACGCUCGAAGGAAAUCGAGAAACAGUAACAAAAACAUUGCAUGCACGCAGAGCACAAUUGCAAC
.....(((((.(((((((...(((((...(((((..(((((((((........)))....((((......))))))))))))))).))))).))))))))))))...(((....)))... ( -36.20)
>DroSec_CAF1 3833 120 + 1
CUAAAGCGUGUCGUGCAAACCGUUUUAUGGUUAUUAUGUUUCUGCUUUACCUUGCAACGCUCGAAGGAAAUCGAGAAACAGUAACAAAAACAUUGCAUGCACGCAGAGCACAAUUGCAAC
.....(((((.(((((((...(((((...(((((..(((((((((........)))....((((......))))))))))))))).))))).))))))))))))...(((....)))... ( -36.20)
>DroSim_CAF1 3840 120 + 1
CCAAAGCGUGUCGUGCAAACCGUUUUAUGGUUAUUAUGUUUCUGCUUUACCUUGCAACGCUCGAAGGAAAUCGAGAAACAGUAACAAAAACAUUGCAUGCACGCAGAGCACAAUUGCAAC
.....(((((.(((((((...(((((...(((((..(((((((((........)))....((((......))))))))))))))).))))).))))))))))))...(((....)))... ( -36.20)
>DroEre_CAF1 3805 117 + 1
CCAAAGCGUGUCGUGCAAACAGUUUUA---UUAUUAUGUUUCUGCUUUACCUUGCAACGCUCGAGGAAAAUCGAGAAACAGUAACAAAAACAUUGCAUGCACGCAGAGCAUAAUUGCAGC
.....(((((.(((((((...(((((.---......((((((((.(((.(((((.......))))).))).).)))))))......))))).))))))))))))...(((....)))... ( -34.92)
>DroYak_CAF1 3990 117 + 1
CCAAAGCGUGUCGUGCAAUCGGUUUUA---UUAUUAUGUUUCUGCUUUACCUUGCAACGCUCGAGGAAAAUCAAGAAACAGUAACAAAAACGUUGCAUGCACGCAGAGCAUAAUUGCAGC
.....(((((.(((((((.((.((((.---((((..(((((((..(((.(((((.......))))).)))...))))))))))).)))).))))))))))))))...(((....)))... ( -37.70)
>consensus
CCAAAGCGUGUCGUGCAAACCGUUUUAUGGUUAUUAUGUUUCUGCUUUACCUUGCAACGCUCGAAGGAAAUCGAGAAACAGUAACAAAAACAUUGCAUGCACGCAGAGCACAAUUGCAAC
.....(((((.(((((((...(((((...(((((..(((((((((........)))....((((......))))))))))))))).))))).))))))))))))...(((....)))... (-33.64 = -34.24 +   0.60)

alignment

secondary structure

dotplot

Window 7

Location	1,331,726 – 1,331,846
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.57
Mean single sequence MFE	-32.74
Consensus MFE	-29.72
Energy contribution	-29.56
Covariance contribution	-0.16
Combinations/Pair	1.02
Mean z-score	-1.64
Structure conservation index	0.91
SVM decision value	1.79
SVM RNA-class probability	0.977301
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1331726 120 - 23771897
GUUGCAAUUGUGCUCUGCGUGCAUGCAAUGUUUUUGUUACUGUUUCUCGAUUUCCUUCGAGCGUUGCAAGGUAAAGCAGAAACAUAAUAACCAUAAAACGGUUUGCACGACACGCUUUGG
...(((....)))...((((((.((((((((((((((((((((..(((((......)))))....))..))))..))))))))))...((((.......)))))))).).)))))..... ( -33.70)
>DroSec_CAF1 3833 120 - 1
GUUGCAAUUGUGCUCUGCGUGCAUGCAAUGUUUUUGUUACUGUUUCUCGAUUUCCUUCGAGCGUUGCAAGGUAAAGCAGAAACAUAAUAACCAUAAAACGGUUUGCACGACACGCUUUAG
...(((....)))...((((((.((((((((((((((((((((..(((((......)))))....))..))))..))))))))))...((((.......)))))))).).)))))..... ( -33.70)
>DroSim_CAF1 3840 120 - 1
GUUGCAAUUGUGCUCUGCGUGCAUGCAAUGUUUUUGUUACUGUUUCUCGAUUUCCUUCGAGCGUUGCAAGGUAAAGCAGAAACAUAAUAACCAUAAAACGGUUUGCACGACACGCUUUGG
...(((....)))...((((((.((((((((((((((((((((..(((((......)))))....))..))))..))))))))))...((((.......)))))))).).)))))..... ( -33.70)
>DroEre_CAF1 3805 117 - 1
GCUGCAAUUAUGCUCUGCGUGCAUGCAAUGUUUUUGUUACUGUUUCUCGAUUUUCCUCGAGCGUUGCAAGGUAAAGCAGAAACAUAAUAA---UAAAACUGUUUGCACGACACGCUUUGG
...(((....)))...((((((.(((((.((((((((((.((((((((((......))))((.((((...)))).)).))))))))))).---.)))))...))))).).)))))..... ( -31.40)
>DroYak_CAF1 3990 117 - 1
GCUGCAAUUAUGCUCUGCGUGCAUGCAACGUUUUUGUUACUGUUUCUUGAUUUUCCUCGAGCGUUGCAAGGUAAAGCAGAAACAUAAUAA---UAAAACCGAUUGCACGACACGCUUUGG
...(((....)))...((((((.(((((((.((((((((.((((((((((......))))((.((((...)))).)).))))))...)))---))))).)).))))).).)))))..... ( -31.20)
>consensus
GUUGCAAUUGUGCUCUGCGUGCAUGCAAUGUUUUUGUUACUGUUUCUCGAUUUCCUUCGAGCGUUGCAAGGUAAAGCAGAAACAUAAUAACCAUAAAACGGUUUGCACGACACGCUUUGG
...(((....)))...((((((.(((((.((((((((((.((((((((((......))))((.((((...)))).)).))))))))))).....)))))...))))).).)))))..... (-29.72 = -29.56 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:17 2006