Locus 6202

Sequence ID 2R_DroMel_CAF1
Location 19,525,331 – 19,525,440
Length 109
Max. P 0.500000
window9931

overview

Window 1

Location 19,525,331 – 19,525,440
Length 109
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 78.20
Mean single sequence MFE -29.62
Consensus MFE -23.05
Energy contribution -22.42
Covariance contribution -0.63
Combinations/Pair 1.26
Mean z-score -0.82
Structure conservation index 0.78
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19525331 109 + 20766785
GAAUCCCGAGGCCCCGAACAUUGGCUAUGAGUUGAACGUGGCCAAGUCCAUAUUGCAGAAGUAUAGCACCCUCAGUGGGGACAACUUGUGAGUAUAGGAUAUCGUCUUA------
.......(((((........(((((((((.......)))))))))(((((((((.((.((((...(..(((.....)))..).)))).))))))).))))...))))).------ ( -32.80)
>DroVir_CAF1 3747 105 + 1
GGAACACGAGCCUCCACACAUUGGCUAUGAGCUGAGUGUAGCCAAGUCGGUGCUGCAACAAUAUAGCACAUUAAGUGGAGACAACUUGUGAGUAUGU-----GAAUUCAC-----
....((((((.((((((...((((((((.........))))))))....((((((........)))))).....))))))....)))))).....((-----(....)))----- ( -34.00)
>DroSec_CAF1 221 104 + 1
GAAUCCCGAGGCCCCGAACAUUGGCUAUGAGUUGAACGUGGCCAAGUCCAUAUUGCAGAAGUAUAGCACCCUCAGUGGGGACAACUUGUGAGUAUGC-----UCUUUUA------
.......(((.....((...(((((((((.......))))))))).))((((((.((.((((...(..(((.....)))..).)))).)))))))))-----)).....------ ( -29.20)
>DroSim_CAF1 373 104 + 1
GAAUCCCGAGGCCCCGAACAUUGGCUAUGAGUUGAACGUGGCCAAGUCCAUAUUGCAGAAGUAUAGCACCCUCAGUGGGGACAACUUGUGAGUAUGC-----UCUUUUA------
.......(((.....((...(((((((((.......))))))))).))((((((.((.((((...(..(((.....)))..).)))).)))))))))-----)).....------ ( -29.20)
>DroEre_CAF1 267 110 + 1
CAAUCCCGAGGCCCCGAAUAUUGGCUAUGAGUUGAAUGUGGCCAAGUCCAUAUUGCAGAAGUACAGCACUCUCAGUGGGGACAACCUGUGAGUUUCC-----UUCAUUAAGAUAA
..(((...(((.........((((((((.........))))))))((((.(((((.(((.((.....)))))))))).))))..)))(((((.....-----)))))...))).. ( -24.90)
>DroAna_CAF1 300 98 + 1
GGUGCCCGAGGCCCCAAAUAUUGGCUACGAGCUGAACGUGGCCAAGUCGAUAAUGCAGCAAUACAGCACCCUAAGUGGGGAUAAUUUGUGAGUAAUA------G-----------
((.(((...))).)).....(((((((((.......)))))))))........(((.((((.....(.(((.....)))).....))))..)))...------.----------- ( -27.60)
>consensus
GAAUCCCGAGGCCCCGAACAUUGGCUAUGAGUUGAACGUGGCCAAGUCCAUAUUGCAGAAGUAUAGCACCCUCAGUGGGGACAACUUGUGAGUAUGC_____UCUUUUA______
...((.((((.(((((....(((((((((.......)))))))))........(((.........))).......)))))....)))).))........................ (-23.05 = -22.42 +  -0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:22 2006