Locus 6654

Sequence ID	3R_DroMel_CAF1
Location	17,480,443 – 17,480,559
Length	116
Max. P	0.988937

overview

Window 8

Location	17,480,443 – 17,480,559
Length	116
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	98.10
Mean single sequence MFE	-30.29
Consensus MFE	-29.68
Energy contribution	-29.76
Covariance contribution	0.08
Combinations/Pair	1.07
Mean z-score	-1.73
Structure conservation index	0.98
SVM decision value	2.14
SVM RNA-class probability	0.988937
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17480443 116 + 27905053
GAUCGCCCCGUGUCCCAUAAAUUGCAUUCGUUAUCGAUUUUCACAAAGUUUUUCUUUCACUCGAUCGUGGGUUCCUUGUUUCUUUCGUGAUUUCUUGGGAUCCUGGGGUGAAAUGC
..((((((((.((((((.((((..(..(((....)))..................(((((......)))))...............)..))))..))))))..))))))))..... ( -32.00)
>DroSec_CAF1 32502 116 + 1
GAUCGCCCCGUGUCCCAUAAAUUGCAUUCGUUAUCGAUUUUCACAAAGUUUUUCUUUCACUCGAUCGUGGGUUCCUUGUUUCUUUCGUGAUUUCUUGGGAUCCUGGGGUGAAAUGC
..((((((((.((((((.((((..(..(((....)))..................(((((......)))))...............)..))))..))))))..))))))))..... ( -32.00)
>DroSim_CAF1 33478 116 + 1
GAUCGCCCCGUGUCCCAUAAAUUGCAUUCGUUAUCGAUUUUCACAAAGUUUUUCUUUCACUCGAUCGUGGGUUCCUUGUUUCUUUCGUGAUUUCUUGGGAUCCUGGGGUGAAAUGC
..((((((((.((((((.((((..(..(((....)))..................(((((......)))))...............)..))))..))))))..))))))))..... ( -32.00)
>DroEre_CAF1 32959 116 + 1
GAUCGCCCCGUGUCCCAUAAAUUGCAUUCGUUAUCGAUUUUCACAAAGUUUUCCUUUCACUCGAUCGUGGGUUCCUUGUUUCUUUCGUGAUUUCUUAGGAUCCUGGGGUGAAAUGC
..((((((((.((((............(((....)))...((((((((.......(((((......)))))..........)))).)))).......))))..))))))))..... ( -26.63)
>DroYak_CAF1 33714 116 + 1
GAUCGCCCCGUGUCCCAUAAAUUGCAUUCGUUAUCGAUUUUCACAAAGUUUUUCUUUUACUCGGUCGUGGGUUCCUUGUUUCUUUCGUGAUUUCUUAGGAUCCCGGGGUGAAAUGC
..((((((((.((((............(((....)))...((((((((..........(((((....))))).........)))).)))).......))))..))))))))..... ( -28.81)
>consensus
GAUCGCCCCGUGUCCCAUAAAUUGCAUUCGUUAUCGAUUUUCACAAAGUUUUUCUUUCACUCGAUCGUGGGUUCCUUGUUUCUUUCGUGAUUUCUUGGGAUCCUGGGGUGAAAUGC
..((((((((.((((((.((((..(..(((....)))..................(((((......)))))...............)..))))..))))))..))))))))..... (-29.68 = -29.76 +   0.08)

alignment

secondary structure

dotplot

Window 9

Location	17,480,443 – 17,480,559
Length	116
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	98.10
Mean single sequence MFE	-26.92
Consensus MFE	-26.02
Energy contribution	-25.98
Covariance contribution	-0.04
Combinations/Pair	1.03
Mean z-score	-1.62
Structure conservation index	0.97
SVM decision value	1.70
SVM RNA-class probability	0.972869
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17480443 116 - 27905053
GCAUUUCACCCCAGGAUCCCAAGAAAUCACGAAAGAAACAAGGAACCCACGAUCGAGUGAAAGAAAAACUUUGUGAAAAUCGAUAACGAAUGCAAUUUAUGGGACACGGGGCGAUC
.....((.((((.(..(((((.(((.(((((((........(....)(((......)))..........)))))))...(((....)))......))).)))))..))))).)).. ( -27.70)
>DroSec_CAF1 32502 116 - 1
GCAUUUCACCCCAGGAUCCCAAGAAAUCACGAAAGAAACAAGGAACCCACGAUCGAGUGAAAGAAAAACUUUGUGAAAAUCGAUAACGAAUGCAAUUUAUGGGACACGGGGCGAUC
.....((.((((.(..(((((.(((.(((((((........(....)(((......)))..........)))))))...(((....)))......))).)))))..))))).)).. ( -27.70)
>DroSim_CAF1 33478 116 - 1
GCAUUUCACCCCAGGAUCCCAAGAAAUCACGAAAGAAACAAGGAACCCACGAUCGAGUGAAAGAAAAACUUUGUGAAAAUCGAUAACGAAUGCAAUUUAUGGGACACGGGGCGAUC
.....((.((((.(..(((((.(((.(((((((........(....)(((......)))..........)))))))...(((....)))......))).)))))..))))).)).. ( -27.70)
>DroEre_CAF1 32959 116 - 1
GCAUUUCACCCCAGGAUCCUAAGAAAUCACGAAAGAAACAAGGAACCCACGAUCGAGUGAAAGGAAAACUUUGUGAAAAUCGAUAACGAAUGCAAUUUAUGGGACACGGGGCGAUC
.....((.((((.(..(((((.(((.((((.................(((......)))((((.....))))))))...(((....)))......))).)))))..))))).)).. ( -26.10)
>DroYak_CAF1 33714 116 - 1
GCAUUUCACCCCGGGAUCCUAAGAAAUCACGAAAGAAACAAGGAACCCACGACCGAGUAAAAGAAAAACUUUGUGAAAAUCGAUAACGAAUGCAAUUUAUGGGACACGGGGCGAUC
.....((.(((((...(((((.(((.(((((((........((...))((......))...........)))))))...(((....)))......))).)))))..))))).)).. ( -25.40)
>consensus
GCAUUUCACCCCAGGAUCCCAAGAAAUCACGAAAGAAACAAGGAACCCACGAUCGAGUGAAAGAAAAACUUUGUGAAAAUCGAUAACGAAUGCAAUUUAUGGGACACGGGGCGAUC
.....((.((((.(..(((((.(((.(((((((........(....)(((......)))..........)))))))...(((....)))......))).)))))..))))).)).. (-26.02 = -25.98 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:53 2006