Locus 2493

Sequence ID	2R_DroMel_CAF1
Location	8,911,255 – 8,911,415
Length	160
Max. P	0.990728

overview

Window 3

Location	8,911,255 – 8,911,375
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.33
Mean single sequence MFE	-43.68
Consensus MFE	-39.24
Energy contribution	-39.20
Covariance contribution	-0.04
Combinations/Pair	1.14
Mean z-score	-1.83
Structure conservation index	0.90
SVM decision value	2.23
SVM RNA-class probability	0.990728
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8911255 120 - 20766785
GAUAAGCUAAUCACGGGCAAAAUCUCCGAGGACAUAGUUUCUGCUGUCUUCGAGGCAGUGGGCAAUGAUCCGGGCAUGGACCGCUUACUGGCGGUUCUGGAGAGGAAUCGCAAGUGUGAA
..........(((((.((....((((((.((((((.((..(..(((((.....)))))..))).))).)))......((((((((....))))))))))))))......))...))))). ( -42.70)
>DroSec_CAF1 156249 120 - 1
GAUAAGCUAAUCACGGGCAAAAUCUCCGAGGACAUAGUUUCUGCUGUCUUCGAGGCAGUGGAAAAUGAUCCCGGCAUGGACCGCUUACUGGCGGUUCUGGAGAGGAAUCGCAAGUGCGCA
.....((....(((..((....((((((.((((((..((((..(((((.....)))))..))))))).)))).....((((((((....)))))))).)))))......))..))).)). ( -45.10)
>DroSim_CAF1 156821 120 - 1
GAUAAGCUAAUCACGGGCAAAAUCUCCGAGGACAUAGUUUCUGCUGUCUUCGAGGCAGUGGAAAAUGAUCCCGGCAUGGACCGCUUACUGGCGGUUCUGGAGAGGAAUCGCAAGUGCGCA
.....((....(((..((....((((((.((((((..((((..(((((.....)))))..))))))).)))).....((((((((....)))))))).)))))......))..))).)). ( -45.10)
>DroEre_CAF1 160561 120 - 1
GAUAAGCUGAUCACGGACAAGAUCUCCGAGGACAUAGUUUCCGCCGUCUUCGAGGCGGUUGGCAAUGAUCCGGGCAUGGACCGCUUGCUGGCGGUUCUGGAGAGGAAUCGCAAGUGCGCG
.....(((.....((((.......)))).((((((.(((.(((((........)))))..))).))).))).)))......(((.((((.((((((((.....)))))))).)))).))) ( -43.00)
>DroYak_CAF1 162593 120 - 1
GAUAAACUAAUCACGGGCAAAAUUUCCGAGGAUAUAGUUUCCGCUGUCUUCGAGGCAGUUGGAAAUGAUCCGAGCAUGGAUCGCUUGCUGGCGGUUCUGGAGAGGAAUCGCAAGUGUGCG
(((.......((.((((.......)))).((((...((((((((((((.....))))).))))))).))))))......)))((.((((.((((((((.....)))))))).)))).)). ( -42.52)
>consensus
GAUAAGCUAAUCACGGGCAAAAUCUCCGAGGACAUAGUUUCUGCUGUCUUCGAGGCAGUGGGAAAUGAUCCGGGCAUGGACCGCUUACUGGCGGUUCUGGAGAGGAAUCGCAAGUGCGCA
...........(((..((....((((((.((((((..(((((((((((.....)))))))))))))).)))......((((((((....))))))))))))))......))..))).... (-39.24 = -39.20 +  -0.04)

alignment

secondary structure

dotplot

Window 4

Location	8,911,295 – 8,911,415
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.33
Mean single sequence MFE	-38.41
Consensus MFE	-30.03
Energy contribution	-31.07
Covariance contribution	1.04
Combinations/Pair	1.17
Mean z-score	-1.69
Structure conservation index	0.78
SVM decision value	0.47
SVM RNA-class probability	0.749819
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8911295 120 - 20766785
ACCUCGGAUUGAAAUACCGGAUUCCCGAUCGGAAAGUUACGAUAAGCUAAUCACGGGCAAAAUCUCCGAGGACAUAGUUUCUGCUGUCUUCGAGGCAGUGGGCAAUGAUCCGGGCAUGGA
.(((((((........(((((((....((((........)))).....)))).)))........))))))).(((.((..(..(((((.....)))))..))).))).((((....)))) ( -37.79)
>DroSec_CAF1 156289 120 - 1
ACCUCGGAUAGAAAUACCGGAUUCCCGAUCGGAAAGUUACGAUAAGCUAAUCACGGGCAAAAUCUCCGAGGACAUAGUUUCUGCUGUCUUCGAGGCAGUGGAAAAUGAUCCCGGCAUGGA
.(((((((........(((((((....((((........)))).....)))).)))........))))))).(((..((((..(((((.....)))))..))))))).(((......))) ( -38.79)
>DroSim_CAF1 156861 120 - 1
ACCUCGGAUAGAAAUACCGGAUUCCCGAUCGGAAAGUUACGAUAAGCUAAUCACGGGCAAAAUCUCCGAGGACAUAGUUUCUGCUGUCUUCGAGGCAGUGGAAAAUGAUCCCGGCAUGGA
.(((((((........(((((((....((((........)))).....)))).)))........))))))).(((..((((..(((((.....)))))..))))))).(((......))) ( -38.79)
>DroEre_CAF1 160601 120 - 1
ACCACGGGUGGAAAUACCAGAGUCCCGCUCGGAAAGCUACGAUAAGCUGAUCACGGACAAGAUCUCCGAGGACAUAGUUUCCGCCGUCUUCGAGGCGGUUGGCAAUGAUCCGGGCAUGGA
.(((....))).....(((..((((...(((((.((((......))))((((........)))))))))((((((.(((.(((((........)))))..))).))).))))))).))). ( -42.90)
>DroYak_CAF1 162633 120 - 1
ACCACGAAUAGAAAUACCGGAGUCGCAGUCGGAAAGUUACGAUAAACUAAUCACGGGCAAAAUUUCCGAGGAUAUAGUUUCCGCUGUCUUCGAGGCAGUUGGAAAUGAUCCGAGCAUGGA
.(((((..((....)).)).....((..((((((((((..(((......)))...)))....)))))))((((...((((((((((((.....))))).))))))).))))..)).))). ( -33.80)
>consensus
ACCUCGGAUAGAAAUACCGGAUUCCCGAUCGGAAAGUUACGAUAAGCUAAUCACGGGCAAAAUCUCCGAGGACAUAGUUUCUGCUGUCUUCGAGGCAGUGGGAAAUGAUCCGGGCAUGGA
.(((((((........(((((((....((((........)))).....)))).)))........))))))).(((..(((((((((((.....)))))))))))))).(((......))) (-30.03 = -31.07 +   1.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:25 2006