Locus 8113

Sequence ID	X_DroMel_CAF1
Location	20,180,509 – 20,180,628
Length	119
Max. P	0.998589

overview

Window 4

Location	20,180,509 – 20,180,628
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.49
Mean single sequence MFE	-30.26
Consensus MFE	-29.27
Energy contribution	-29.67
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-2.05
Structure conservation index	0.97
SVM decision value	3.15
SVM RNA-class probability	0.998589
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20180509 119 + 22224390
CAUUUUUAUCCCUUUUAUACACAAAAUCCAUGAAAUAUGCACACUAACUCAUGCGUAUUUUAUAAUAAUAAAAGCGCACGGUAAAGUGCCAAGCGGGUGGC-CCGGGAAGAGGGUAACAG
.....(((.(((((((.........((((((((((((((((..........))))))))))))..........((((((......))))...))))))...-.....))))))))))... ( -29.73)
>DroSec_CAF1 2177 119 + 1
CAUUUUUAUCCCUUUUAUACACAAAAUCCAUGAAAUAUGCACACUAACUCAUGCGUAUUUUAUAAUAAUAAAAGCGCACGGUAAAGUGCCAAGCGGGUGGC-CCGGGAAGAGGGUAACAG
.....(((.(((((((.........((((((((((((((((..........))))))))))))..........((((((......))))...))))))...-.....))))))))))... ( -29.73)
>DroSim_CAF1 1595 119 + 1
CAUUUUUAUCCCUUUUAUACACAAAAUCCAUGAAAUAUGCACACUAACUCAUGCGUAUUUUAUAAUAAUAAAAGCGCACGGUAAAGUGCCAAGCGGGUGGC-CCGGGAAGAGGGUAACAG
.....(((.(((((((.........((((((((((((((((..........))))))))))))..........((((((......))))...))))))...-.....))))))))))... ( -29.73)
>DroEre_CAF1 589 119 + 1
CAUUUUUAUCCCUUUUAUACACAAAAUCCAUGAAAUAUGCACACUAACUCAUGCGUAUUUUAUAAUAAUAAAAGCGCACGGCAAAGUGCCAAGCGGGCGGC-CCGGGAAGAGGGGACAAG
........((((((((..........(((((((((((((((..........))))))))))))..........(.((((......)))))...((((...)-)))))))))))))).... ( -31.10)
>DroYak_CAF1 2176 120 + 1
CAUUUUUAUCCCUUUUAUACACAAAAUCCAUGAAAUAUGCACACUAACUCAUGCGUAUUUUAUAAUAAUAAAAGCGCACGGUAAAGUGCCAAGCGGGAGGCACCGGGAAGAGGGAAACAG
........((((((((..........(((((((((((((((..........))))))))))))..........((((((......))))...)).))).........))))))))..... ( -31.01)
>consensus
CAUUUUUAUCCCUUUUAUACACAAAAUCCAUGAAAUAUGCACACUAACUCAUGCGUAUUUUAUAAUAAUAAAAGCGCACGGUAAAGUGCCAAGCGGGUGGC_CCGGGAAGAGGGUAACAG
.........(((((((.........((((((((((((((((..........))))))))))))..........((((((......))))...)))))).........)))))))...... (-29.27 = -29.67 +   0.40)

alignment

secondary structure

dotplot

Window 5

Location	20,180,509 – 20,180,628
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.49
Mean single sequence MFE	-29.90
Consensus MFE	-27.04
Energy contribution	-26.96
Covariance contribution	-0.08
Combinations/Pair	1.06
Mean z-score	-1.28
Structure conservation index	0.90
SVM decision value	0.18
SVM RNA-class probability	0.620793
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20180509 119 - 22224390
CUGUUACCCUCUUCCCGG-GCCACCCGCUUGGCACUUUACCGUGCGCUUUUAUUAUUAUAAAAUACGCAUGAGUUAGUGUGCAUAUUUCAUGGAUUUUGUGUAUAAAAGGGAUAAAAAUG
......((((....((((-((.....))))))((((..((((((((.((((((....))))))..)))))).)).))))((((((.((....))...))))))....))))......... ( -28.80)
>DroSec_CAF1 2177 119 - 1
CUGUUACCCUCUUCCCGG-GCCACCCGCUUGGCACUUUACCGUGCGCUUUUAUUAUUAUAAAAUACGCAUGAGUUAGUGUGCAUAUUUCAUGGAUUUUGUGUAUAAAAGGGAUAAAAAUG
......((((....((((-((.....))))))((((..((((((((.((((((....))))))..)))))).)).))))((((((.((....))...))))))....))))......... ( -28.80)
>DroSim_CAF1 1595 119 - 1
CUGUUACCCUCUUCCCGG-GCCACCCGCUUGGCACUUUACCGUGCGCUUUUAUUAUUAUAAAAUACGCAUGAGUUAGUGUGCAUAUUUCAUGGAUUUUGUGUAUAAAAGGGAUAAAAAUG
......((((....((((-((.....))))))((((..((((((((.((((((....))))))..)))))).)).))))((((((.((....))...))))))....))))......... ( -28.80)
>DroEre_CAF1 589 119 - 1
CUUGUCCCCUCUUCCCGG-GCCGCCCGCUUGGCACUUUGCCGUGCGCUUUUAUUAUUAUAAAAUACGCAUGAGUUAGUGUGCAUAUUUCAUGGAUUUUGUGUAUAAAAGGGAUAAAAAUG
.(((((((......((((-((.....))))))((((..((((((((.((((((....))))))..)))))).)).))))((((((.((....))...)))))).....)))))))..... ( -32.60)
>DroYak_CAF1 2176 120 - 1
CUGUUUCCCUCUUCCCGGUGCCUCCCGCUUGGCACUUUACCGUGCGCUUUUAUUAUUAUAAAAUACGCAUGAGUUAGUGUGCAUAUUUCAUGGAUUUUGUGUAUAAAAGGGAUAAAAAUG
.....(((((......((((((........))))))..((((((((.((((((....))))))..)))))).))...((((((((.((....))...))))))))..)))))........ ( -30.50)
>consensus
CUGUUACCCUCUUCCCGG_GCCACCCGCUUGGCACUUUACCGUGCGCUUUUAUUAUUAUAAAAUACGCAUGAGUUAGUGUGCAUAUUUCAUGGAUUUUGUGUAUAAAAGGGAUAAAAAUG
............((((...((((......))))(((..((((((((.((((((....))))))..)))))).)).)))(((((((.((....))...)))))))....))))........ (-27.04 = -26.96 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:43 2006