Locus 7029

Sequence ID	X_DroMel_CAF1
Location	17,592,441 – 17,592,592
Length	151
Max. P	0.999945

overview

Window 3

Location	17,592,441 – 17,592,553
Length	112
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.88
Mean single sequence MFE	-36.04
Consensus MFE	-34.60
Energy contribution	-34.64
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-2.31
Structure conservation index	0.96
SVM decision value	4.26
SVM RNA-class probability	0.999853
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17592441 112 - 22224390
GUGCGAACGCAUUUUGGCUCCCAAGACGAGUUCGUUACGCGCGUAAUUGCGAAAGUAAUUAGUGCAAAGCGUUCAAUUGCGAUACUUGCAACCUGUAACUGGUUAAAUUCCC--------
....((((((...((((...))))((((....))))..((((.(((((((....)))))))))))...))))))....((((...))))((((.......))))........-------- ( -33.70)
>DroSec_CAF1 11832 112 - 1
GUGCGAACGCAUUUUGGCUCCCAAGACGAGUUCGUUACGCGCGUAAUUGCGAAAGUAAUUAGUGCAAAGCGUUCAAUUGCGAUACUCGCAACCUGUAACUGGUUAAAUCCCC--------
....((((((...((((...))))((((....))))..((((.(((((((....)))))))))))...))))))....(((.....)))((((.......))))........-------- ( -36.10)
>DroSim_CAF1 30452 112 - 1
GUGCGAACGCAUUUUGGCUCCCAAGACGAGUUCGUUACGCGCGUAAUUGCGAAAGUAAUUAGUGCAAAGCGUUCAAUUGCGAUACUCGCAACCUGUAACUGGUUAAAUCCCC--------
....((((((...((((...))))((((....))))..((((.(((((((....)))))))))))...))))))....(((.....)))((((.......))))........-------- ( -36.10)
>DroEre_CAF1 11578 112 - 1
GUGCGAACGCAUUUUGGCUCCCAAGACGAGUUCGUUACGCGCGUAAUUGCGAAAGUAAUUAGUGCAAAGCGUUCAAUUGCGAUUCUCGCCACCUGUAACUGGUUAAAGCCCC--------
(((.((((((...((((...))))((((....))))..((((.(((((((....)))))))))))...))))))....(((.....))))))........(((....)))..-------- ( -35.00)
>DroYak_CAF1 22830 120 - 1
GUGCGAACGCAUUUUGGCUCCCAAGACGAGUUCGUUACGCGCGUAAUUGCGAAAGUAAUUAGUGCAAAGCGUUCAAUUGCGAUACUCGCAACCUGUAACUGCUUAAAACCCCCCCACUUC
((((((((.(.((((((...)))))).).))))).)))((((.(((((((....))))))))))).(((((((((.(((((.....)))))..)).))).))))................ ( -39.30)
>consensus
GUGCGAACGCAUUUUGGCUCCCAAGACGAGUUCGUUACGCGCGUAAUUGCGAAAGUAAUUAGUGCAAAGCGUUCAAUUGCGAUACUCGCAACCUGUAACUGGUUAAAUCCCC________
.(((((((((...((((...))))((((....))))..((((.(((((((....)))))))))))...))))))..(((((.....)))))...)))....................... (-34.60 = -34.64 +   0.04)

alignment

secondary structure

dotplot

Window 4

Location	17,592,473 – 17,592,592
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.83
Mean single sequence MFE	-42.02
Consensus MFE	-41.74
Energy contribution	-41.74
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.91
Structure conservation index	0.99
SVM decision value	4.74
SVM RNA-class probability	0.999945
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17592473 119 - 22224390
GGAGGGUGGAGCACACAAAA-GGGGGCCUAAUGAUGGGAAGUGCGAACGCAUUUUGGCUCCCAAGACGAGUUCGUUACGCGCGUAAUUGCGAAAGUAAUUAGUGCAAAGCGUUCAAUUGC
........((((.(......-(((((((.........(((((((....))))))))))))))..((((....))))..((((.(((((((....)))))))))))...).))))...... ( -41.90)
>DroSec_CAF1 11864 119 - 1
GGAGGAUGGAGCACACAAAA-GGGGGCCUAAUGAUGGGAAGUGCGAACGCAUUUUGGCUCCCAAGACGAGUUCGUUACGCGCGUAAUUGCGAAAGUAAUUAGUGCAAAGCGUUCAAUUGC
....(((.((((.(......-(((((((.........(((((((....))))))))))))))..((((....))))..((((.(((((((....)))))))))))...).)))).))).. ( -42.10)
>DroSim_CAF1 30484 119 - 1
GGAGGGUGGAGCACACAAAA-GGGGGCCUAAUGAUGGGAAGUGCGAACGCAUUUUGGCUCCCAAGACGAGUUCGUUACGCGCGUAAUUGCGAAAGUAAUUAGUGCAAAGCGUUCAAUUGC
........((((.(......-(((((((.........(((((((....))))))))))))))..((((....))))..((((.(((((((....)))))))))))...).))))...... ( -41.90)
>DroEre_CAF1 11610 120 - 1
CAAGGGUGGAGCACACAAAAAGGGGGCCUAAUGAUGGGAAGUGCGAACGCAUUUUGGCUCCCAAGACGAGUUCGUUACGCGCGUAAUUGCGAAAGUAAUUAGUGCAAAGCGUUCAAUUGC
(((...((((((.........(((((((.........(((((((....))))))))))))))..((((....))))..((((.(((((((....)))))))))))...)).)))).))). ( -42.40)
>DroYak_CAF1 22870 120 - 1
AGGGGGUGGAGCACACAAAAGGGGGGCCUAAUGAUGGGAAGUGCGAACGCAUUUUGGCUCCCAAGACGAGUUCGUUACGCGCGUAAUUGCGAAAGUAAUUAGUGCAAAGCGUUCAAUUGC
..(.(((.((((.(.......(((((((.........(((((((....))))))))))))))..((((....))))..((((.(((((((....)))))))))))...).)))).))).) ( -41.80)
>consensus
GGAGGGUGGAGCACACAAAA_GGGGGCCUAAUGAUGGGAAGUGCGAACGCAUUUUGGCUCCCAAGACGAGUUCGUUACGCGCGUAAUUGCGAAAGUAAUUAGUGCAAAGCGUUCAAUUGC
........((((.(.......(((((((.........(((((((....))))))))))))))..((((....))))..((((.(((((((....)))))))))))...).))))...... (-41.74 = -41.74 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:28 2006