Locus 8718

Sequence ID	3R_DroMel_CAF1
Location	23,300,696 – 23,300,789
Length	93
Max. P	0.810688

overview

Window 0

Location	23,300,696 – 23,300,789
Length	93
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	87.89
Mean single sequence MFE	-26.14
Consensus MFE	-21.20
Energy contribution	-21.48
Covariance contribution	0.28
Combinations/Pair	1.03
Mean z-score	-1.90
Structure conservation index	0.81
SVM decision value	0.06
SVM RNA-class probability	0.562387
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23300696 93 + 27905053
GGGUUUGUUUAGAAGGUUUUAUGCAUAUGUCCGACAUGUGGAAAAUUCCAUUAGGAAGUUUUCUUUGUUUGCAUACAUUUGCAUGCCUCUGCC------------------
.........((((.(((...(((((.(((((.((((...((((((((((....)).)))))))).)))).)...)))).))))))))))))..------------------ ( -23.30)
>DroPse_CAF1 103150 105 + 1
GGGUUUGUUUAGAAGGUUUUAUGCAUAUGUCCGACAUGUGGAAAAUUCCAUUAGGAAGUUUUCUUUGUUUGCAUACAUUUGCAUGCCUUUCUCUCUGCCU------CUGCC
((((.......((((((...(((((.(((((.((((...((((((((((....)).)))))))).)))).)...)))).)))))))))))......))))------..... ( -27.12)
>DroSec_CAF1 98143 95 + 1
GGGUUUGUUUAGAAGGU-UUAUGCAUAUGUCCGACAUGUGGAAAAUUCCAUUAGGAAGUUUUCAUUGUUUGCAUACAUUUGCAUGCCUCUGCC------AUC---------
.(((......(((.(((-..(((((.(((((.((((.(((((((.((((....)))).))))))))))).)...)))).))))))))))))))------...--------- ( -26.00)
>DroSim_CAF1 102015 96 + 1
GGGUUUGUUUAGAAGGUUUUAUGCAUAUGUCCGACAUGUGGAAAAUUCCAUUAGGAAGUUUUCUUUGUUUGCAUACAUUUGCAUGCCUCUGCC------AUC---------
.(((......(((.(((...(((((.(((((.((((...((((((((((....)).)))))))).)))).)...)))).))))))))))))))------...--------- ( -24.20)
>DroYak_CAF1 108431 111 + 1
GGGUUUGUUUAGAAGGUUUUAUGCAUAUGUCCGACAUGUGGAAAAUUCCAUUAGGAAGUUUUCUUUGUUUGCAUACAUUUGCAUGCCUCUGCCUCAGCCAAAACCUUCGCC
...........((((((((((((((.(((((.((((...((((((((((....)).)))))))).)))).)...)))).)))))......((....)).)))))))))... ( -29.10)
>DroPer_CAF1 103586 105 + 1
GGGUUUGUUUAGAAGGUUUUAUGCAUAUGUCCGACAUGUGGAAAAUUCCAUUAGGAAGUUUUCUUUGUUUGCAUACAUUUGCAUGCCUUUCUCUCUGCCU------CUGCC
((((.......((((((...(((((.(((((.((((...((((((((((....)).)))))))).)))).)...)))).)))))))))))......))))------..... ( -27.12)
>consensus
GGGUUUGUUUAGAAGGUUUUAUGCAUAUGUCCGACAUGUGGAAAAUUCCAUUAGGAAGUUUUCUUUGUUUGCAUACAUUUGCAUGCCUCUGCC______A___________
.........((((.(((...(((((.(((((.((((...((((((((((....)).)))))))).)))).)...)))).)))))))))))).................... (-21.20 = -21.48 +   0.28)

alignment

secondary structure

dotplot

Window 1

Location	23,300,696 – 23,300,789
Length	93
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	87.89
Mean single sequence MFE	-21.47
Consensus MFE	-18.29
Energy contribution	-18.07
Covariance contribution	-0.22
Combinations/Pair	1.04
Mean z-score	-1.97
Structure conservation index	0.85
SVM decision value	0.65
SVM RNA-class probability	0.810688
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23300696 93 - 27905053
------------------GGCAGAGGCAUGCAAAUGUAUGCAAACAAAGAAAACUUCCUAAUGGAAUUUUCCACAUGUCGGACAUAUGCAUAAAACCUUCUAAACAAACCC
------------------...(((((.(((((.((((..(((......(((((.((((....)))))))))....)))...)))).))))).....))))).......... ( -18.60)
>DroPse_CAF1 103150 105 - 1
GGCAG------AGGCAGAGAGAAAGGCAUGCAAAUGUAUGCAAACAAAGAAAACUUCCUAAUGGAAUUUUCCACAUGUCGGACAUAUGCAUAAAACCUUCUAAACAAACCC
.(((.------.((((.........((((((....)))))).......(((((.((((....)))))))))....)))).......)))...................... ( -20.30)
>DroSec_CAF1 98143 95 - 1
---------GAU------GGCAGAGGCAUGCAAAUGUAUGCAAACAAUGAAAACUUCCUAAUGGAAUUUUCCACAUGUCGGACAUAUGCAUAA-ACCUUCUAAACAAACCC
---------..(------(..(((((.(((((.((((..(((......(((((.((((....)))))))))....)))...)))).)))))..-..)))))...))..... ( -19.60)
>DroSim_CAF1 102015 96 - 1
---------GAU------GGCAGAGGCAUGCAAAUGUAUGCAAACAAAGAAAACUUCCUAAUGGAAUUUUCCACAUGUCGGACAUAUGCAUAAAACCUUCUAAACAAACCC
---------..(------(..(((((.(((((.((((..(((......(((((.((((....)))))))))....)))...)))).))))).....)))))...))..... ( -18.90)
>DroYak_CAF1 108431 111 - 1
GGCGAAGGUUUUGGCUGAGGCAGAGGCAUGCAAAUGUAUGCAAACAAAGAAAACUUCCUAAUGGAAUUUUCCACAUGUCGGACAUAUGCAUAAAACCUUCUAAACAAACCC
...((((((((((((((.((((...((((((....)))))).......(((((.((((....)))))))))....))))...))...)).))))))))))........... ( -31.10)
>DroPer_CAF1 103586 105 - 1
GGCAG------AGGCAGAGAGAAAGGCAUGCAAAUGUAUGCAAACAAAGAAAACUUCCUAAUGGAAUUUUCCACAUGUCGGACAUAUGCAUAAAACCUUCUAAACAAACCC
.(((.------.((((.........((((((....)))))).......(((((.((((....)))))))))....)))).......)))...................... ( -20.30)
>consensus
___________U______GGCAGAGGCAUGCAAAUGUAUGCAAACAAAGAAAACUUCCUAAUGGAAUUUUCCACAUGUCGGACAUAUGCAUAAAACCUUCUAAACAAACCC
......................((((.(((((.((((..(((......(((((.((((....)))))))))....)))...)))).)))))....))))............ (-18.29 = -18.07 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:00 2006