Locus 4764

Sequence ID 2L_DroMel_CAF1
Location 13,579,814 – 13,579,968
Length 154
Max. P 0.919887
window7539 window7540

overview

Window 9

Location 13,579,814 – 13,579,930
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.64
Mean single sequence MFE -27.45
Consensus MFE -24.81
Energy contribution -24.62
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -1.95
Structure conservation index 0.90
SVM decision value 1.13
SVM RNA-class probability 0.919887
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13579814 116 + 22407834
GCAUUUUAUUUCAUGCU--CACUCCCUUUGCCACUCGCC-UUUUUUGUGCACAAAUUUUUAGUAAGCUGAGAAUU-UCCAUGGCGCCAUUUGGCCAUGUUUGUGCGGCCAACUAGUCCCA
((((........)))).--..........(((((.....-......))((((((((((((((....)))))))..-..((((((........))))))))))))))))............ ( -27.40)
>DroSec_CAF1 12927 116 + 1
GCAUUUUAUUUCAUGCU--CACUCUCUUUGCCACUCGCC-UUUUUUAUGCACAAAUUUUUAGCCAGCUGAGAAUC-UCCAUGGCGUCAUUUGGCCAUGUUUGUGCGGCCAACUAGUCCCA
((((........)))).--.................(((-........((((((((((((((....)))))))..-..((((((........))))))))))))))))............ ( -26.00)
>DroEre_CAF1 13273 115 + 1
GCAUUUUAUUUCAUGCU--CACUCCCUUUGCCACUUGC--UUUUUUAUGCACAAAUUUUUAGCAAGCUGAGAAUU-UCCAUGGCGCCAUUUGGCCAUGUUUGUGUGGCCAACUAGUCCCA
((((........)))).--..........((((..(((--........))).((((((((((....)))))))))-)...)))).....((((((((......))))))))......... ( -29.40)
>DroYak_CAF1 10021 120 + 1
GCAUUUUAUUACAUGCUCUCACUCCCUUUGCCACUCGCCUUUUUUUAUGCACAAAUUUUUAGCAAGCUGAGAAUUUUCCAUGGCGCCAUUGGGCCAUGUUUGUGCGGCCAACUAGUCCCA
((((........))))....................(((.........((((((((((((((....))))))).....((((((.((...))))))))))))))))))............ ( -27.00)
>consensus
GCAUUUUAUUUCAUGCU__CACUCCCUUUGCCACUCGCC_UUUUUUAUGCACAAAUUUUUAGCAAGCUGAGAAUU_UCCAUGGCGCCAUUUGGCCAUGUUUGUGCGGCCAACUAGUCCCA
((((........))))................................((((((((((((((....))))))).....((((((........)))))))))))))(((......)))... (-24.81 = -24.62 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,579,851 – 13,579,968
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.27
Mean single sequence MFE -27.42
Consensus MFE -23.44
Energy contribution -23.50
Covariance contribution 0.06
Combinations/Pair 1.07
Mean z-score -1.54
Structure conservation index 0.85
SVM decision value 0.30
SVM RNA-class probability 0.678950
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13579851 117 + 22407834
UUUUUUGUGCACAAAUUUUUAGUAAGCUGAGAAUU-UCCAUGGCGCCAUUUGGCCAUGUUUGUGCGGCCAACUAGUCCCACGCUUU--GAGAAACAAACCAAAAAACAAAUUUAGACCAC
(((((((.((((((((((((((....)))))))..-..((((((........)))))))))))))(((......))).........--...........))))))).............. ( -25.70)
>DroSec_CAF1 12964 117 + 1
UUUUUUAUGCACAAAUUUUUAGCCAGCUGAGAAUC-UCCAUGGCGUCAUUUGGCCAUGUUUGUGCGGCCAACUAGUCCCACGCUUU--GAGGCACAAACCAAAAAACAAUUUUAGACCAU
((((((.(((((((((((((((....)))))))..-..((((((........))))))))))))))(((....(((.....)))..--..))).......)))))).............. ( -28.20)
>DroEre_CAF1 13309 118 + 1
UUUUUUAUGCACAAAUUUUUAGCAAGCUGAGAAUU-UCCAUGGCGCCAUUUGGCCAUGUUUGUGUGGCCAACUAGUCCCACACUUUCCCAGGCACAAACCAA-AAACAAUUUUAGACCAU
.......(((..((((((((((....)))))))))-)...(((.((...((((((((......))))))))...)).)))...........)))........-................. ( -25.90)
>DroYak_CAF1 10061 117 + 1
UUUUUUAUGCACAAAUUUUUAGCAAGCUGAGAAUUUUCCAUGGCGCCAUUGGGCCAUGUUUGUGCGGCCAACUAGUCCCACACUUU--GAGGCGCAAACGCA-AAACAAUUUUAGACCAU
.......(((((((((((((((....))))))).....((((((.((...))))))))))))))))(((....(((.....)))..--..)))((....)).-................. ( -29.90)
>consensus
UUUUUUAUGCACAAAUUUUUAGCAAGCUGAGAAUU_UCCAUGGCGCCAUUUGGCCAUGUUUGUGCGGCCAACUAGUCCCACACUUU__GAGGCACAAACCAA_AAACAAUUUUAGACCAU
.......(((((((((((((((....))))))).....((((((........))))))))))))))(((....(((.....)))......)))........................... (-23.44 = -23.50 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:44 2006