Locus 4589

Sequence ID	2R_DroMel_CAF1
Location	14,972,891 – 14,973,011
Length	120
Max. P	0.908729

overview

Window 0

Location	14,972,891 – 14,973,011
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	92.22
Mean single sequence MFE	-31.70
Consensus MFE	-27.59
Energy contribution	-28.28
Covariance contribution	0.69
Combinations/Pair	1.08
Mean z-score	-1.42
Structure conservation index	0.87
SVM decision value	0.08
SVM RNA-class probability	0.574299
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14972891 120 + 20766785
AAUAUAAGUAAAUUGCUAGAACAAUGGAUGAAUUUUCGGAGAAUAUAGAAAGAAUUGCCCUCGAGUUGCUGAGCAACUUGGUUCAUGGCAAUGCCACUCUUAGUGUUCCCCGAAAUUCAU
...........((((......))))..((((((((.(((.(((((((((....((((((.(((((((((...))))))))).....)))))).....)))..)))))).))))))))))) ( -33.50)
>DroSim_CAF1 3636 120 + 1
AAUAUAAGUAAAUUGCUAGAACAAUGGGUGAAUUUGCGGAGAAUAUAGAAAGAAUUGCCCUCGAGUUGCUGAGCAACUUGGUUCAUGGCAAUGCCACUCUUAGUGUUCCCCGAAAUUCAU
...........((((......))))..((((((((.(((.(((((((((....((((((.(((((((((...))))))))).....)))))).....)))..)))))).))))))))))) ( -33.80)
>DroEre_CAF1 3238 120 + 1
AAUAUAAGUAAAUUGCUAGAACAAUGGGUGAAUUUGCGGAGAGUAUAGAAAUGAUUGCCCUCGAUCUGCUGAGCAACUUGGUCCACGGCAAUGCCCAUCUGCGGGUUCCCCGAAAUUUAU
...((((((..((((......))))(((.(((((((((((..((.((....))((((((...(((((((...)))....))))...))))))))...))))))))))))))...)))))) ( -31.30)
>DroYak_CAF1 2935 120 + 1
AAUAUAAGUAAAUUGCUAGAACAAUGGGUGAAUUUGCGGAGAGUAUAGAAAGAAUUGCCCUCGAGCUGCUGAGCAACUUGGUCCAAGGCAAUGCCACUCUACGUGUUCCCCGAAAUUCAG
..................(((...((((.((((..(((.(((((..........(((..(.((((.(((...))).)))))..)))(((...)))))))).)))))))))))...))).. ( -28.20)
>consensus
AAUAUAAGUAAAUUGCUAGAACAAUGGGUGAAUUUGCGGAGAAUAUAGAAAGAAUUGCCCUCGAGCUGCUGAGCAACUUGGUCCAUGGCAAUGCCACUCUUAGUGUUCCCCGAAAUUCAU
...........((((......))))..((((((((.(((.(((((((((....((((((.(((((((((...))))))))).....)))))).....)))..)))))).))))))))))) (-27.59 = -28.28 +   0.69)

alignment

secondary structure

dotplot

Window 1

Location	14,972,891 – 14,973,011
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	92.22
Mean single sequence MFE	-31.43
Consensus MFE	-26.33
Energy contribution	-26.45
Covariance contribution	0.12
Combinations/Pair	1.06
Mean z-score	-2.14
Structure conservation index	0.84
SVM decision value	1.06
SVM RNA-class probability	0.908729
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14972891 120 - 20766785
AUGAAUUUCGGGGAACACUAAGAGUGGCAUUGCCAUGAACCAAGUUGCUCAGCAACUCGAGGGCAAUUCUUUCUAUAUUCUCCGAAAAUUCAUCCAUUGUUCUAGCAAUUUACUUAUAUU
(((((((((((((((....(((((((((...))).((..((.((((((...)))))).).)..))))))))......))))))).))))))))..(((((....)))))........... ( -31.50)
>DroSim_CAF1 3636 120 - 1
AUGAAUUUCGGGGAACACUAAGAGUGGCAUUGCCAUGAACCAAGUUGCUCAGCAACUCGAGGGCAAUUCUUUCUAUAUUCUCCGCAAAUUCACCCAUUGUUCUAGCAAUUUACUUAUAUU
.((((((((((((((....(((((((((...))).((..((.((((((...)))))).).)..))))))))......))))))).)))))))...(((((....)))))........... ( -31.10)
>DroEre_CAF1 3238 120 - 1
AUAAAUUUCGGGGAACCCGCAGAUGGGCAUUGCCGUGGACCAAGUUGCUCAGCAGAUCGAGGGCAAUCAUUUCUAUACUCUCCGCAAAUUCACCCAUUGUUCUAGCAAUUUACUUAUAUU
...(((((((((((.((((....)))).((((((.(.((.....((((...)))).)).).))))))...........)))))).))))).....(((((....)))))........... ( -25.90)
>DroYak_CAF1 2935 120 - 1
CUGAAUUUCGGGGAACACGUAGAGUGGCAUUGCCUUGGACCAAGUUGCUCAGCAGCUCGAGGGCAAUUCUUUCUAUACUCUCCGCAAAUUCACCCAUUGUUCUAGCAAUUUACUUAUAUU
.(((((((((((((....((((((.((.((((((((.((....(((((...))))))).)))))))))).))))))..)))))).)))))))...(((((....)))))........... ( -37.20)
>consensus
AUGAAUUUCGGGGAACACGAAGAGUGGCAUUGCCAUGAACCAAGUUGCUCAGCAACUCGAGGGCAAUUCUUUCUAUACUCUCCGCAAAUUCACCCAUUGUUCUAGCAAUUUACUUAUAUU
.(((((((((((((.(((.....)))..((((((......(.((((((...)))))).)..))))))...........)))))).)))))))...(((((....)))))........... (-26.33 = -26.45 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:04 2006