Locus 5847

Sequence ID	3R_DroMel_CAF1
Location	15,315,390 – 15,315,483
Length	93
Max. P	0.999262

overview

Window 6

Location	15,315,390 – 15,315,483
Length	93
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	84.15
Mean single sequence MFE	-25.62
Consensus MFE	-16.18
Energy contribution	-17.78
Covariance contribution	1.60
Combinations/Pair	1.00
Mean z-score	-2.20
Structure conservation index	0.63
SVM decision value	0.47
SVM RNA-class probability	0.750544
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15315390 93 + 27905053
GACACCACAUCGAAGUC-UCAUAUCUCUAACCAGCAGGAGUGCAGGAGGUGUAGAGAUCUCUCAUCCUUUGGCAAUCCUGCUAGCUAAGCUACA
(((...........)))-..............(((((((.(((..((((((.(((....))))).))))..))).)))))))(((...)))... ( -26.50)
>DroSec_CAF1 68263 94 + 1
GACACUACAUCGAAGUCCUCGUACCUUUAACCAGCAGGAGUGCUGUAGGUGAAAAAAUCUCUCAUCCUUUGGCAAUCCUGCUAGCUAAGCUACA
(((...........)))...(((.(((...(.(((((((.(((((.((((((.........))).))).))))).))))))).)..))).))). ( -26.00)
>DroSim_CAF1 69943 93 + 1
GACACUACAUCGAAGUC-UUGUACCUCUAACCAGCAGGAGUGCUGUAGGUAAAGAAAUCUCUCAUCCUUUGGCAAUCCUGCUAGCUAAGCUACA
(((...........)))-.((((.((.((.(.(((((((.(((((.(((...(((....)))...))).))))).))))))).).)))).)))) ( -25.30)
>DroEre_CAF1 64353 82 + 1
GACA-----------UC-UUGUACCUCUAGCUAGCAGGAGUGCUGCAGAUGGAAAAGUAUCUCAUGCUUUGGCAAUCGUGCUAGCUAAGCUACA
....-----------..-.((((.((.(((((((((.((.(((((.(((((((......)).))).)).))))).)).))))))))))).)))) ( -29.20)
>DroYak_CAF1 71783 93 + 1
GACACCACAACGAAGUC-UUGUACCUCUAACUAGCAGGAGUGCUGCAGAUAAAGAAGACUCUCAUCCUUUGGCAAUCGUGCUAGCUAAGCUACA
(((...........)))-.((((.((.((.((((((.((.(((((.((....(((....)))....)).))))).)).)))))).)))).)))) ( -21.10)
>consensus
GACACCACAUCGAAGUC_UUGUACCUCUAACCAGCAGGAGUGCUGCAGGUGAAGAAAUCUCUCAUCCUUUGGCAAUCCUGCUAGCUAAGCUACA
....................(((.((.((.(.(((((((.(((((.(((...(((....)))...))).))))).))))))).).)))).))). (-16.18 = -17.78 +   1.60)

alignment

secondary structure

dotplot

Window 7

Location	15,315,390 – 15,315,483
Length	93
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	84.15
Mean single sequence MFE	-31.50
Consensus MFE	-29.46
Energy contribution	-28.82
Covariance contribution	-0.64
Combinations/Pair	1.29
Mean z-score	-2.96
Structure conservation index	0.94
SVM decision value	3.47
SVM RNA-class probability	0.999262
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15315390 93 - 27905053
UGUAGCUUAGCUAGCAGGAUUGCCAAAGGAUGAGAGAUCUCUACACCUCCUGCACUCCUGCUGGUUAGAGAUAUGA-GACUUCGAUGUGGUGUC
.(((.((((((((((((((.(((...(((.(((((....))).)))))...))).))))))))))).))).)))((-.(((.......))).)) ( -31.90)
>DroSec_CAF1 68263 94 - 1
UGUAGCUUAGCUAGCAGGAUUGCCAAAGGAUGAGAGAUUUUUUCACCUACAGCACUCCUGCUGGUUAAAGGUACGAGGACUUCGAUGUAGUGUC
.(((.((((((((((((((.(((...(((.((((((...)))))))))...))).))))))))))).))).)))...(((..(......).))) ( -34.20)
>DroSim_CAF1 69943 93 - 1
UGUAGCUUAGCUAGCAGGAUUGCCAAAGGAUGAGAGAUUUCUUUACCUACAGCACUCCUGCUGGUUAGAGGUACAA-GACUUCGAUGUAGUGUC
((((.((((((((((((((.(((...(((...((((....)))).)))...))).))))))))))).))).)))).-(((..(......).))) ( -34.20)
>DroEre_CAF1 64353 82 - 1
UGUAGCUUAGCUAGCACGAUUGCCAAAGCAUGAGAUACUUUUCCAUCUGCAGCACUCCUGCUAGCUAGAGGUACAA-GA-----------UGUC
((((.(((((((((((.((.(((...((.(((.((......)))))))...))).)).)))))))).))).)))).-..-----------.... ( -29.00)
>DroYak_CAF1 71783 93 - 1
UGUAGCUUAGCUAGCACGAUUGCCAAAGGAUGAGAGUCUUCUUUAUCUGCAGCACUCCUGCUAGUUAGAGGUACAA-GACUUCGUUGUGGUGUC
((((.(((((((((((.((.(((....(((((((.......)))))))...))).)).)))))))).))).)))).-(((.((.....)).))) ( -28.20)
>consensus
UGUAGCUUAGCUAGCAGGAUUGCCAAAGGAUGAGAGAUUUCUUCACCUACAGCACUCCUGCUGGUUAGAGGUACAA_GACUUCGAUGUAGUGUC
((((.((((((((((((((.(((...(((..((((....))))..)))...))).))))))))))).))).))))................... (-29.46 = -28.82 +  -0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:07 2006