Locus 7299

Sequence ID 3R_DroMel_CAF1
Location 19,273,676 – 19,273,766
Length 90
Max. P 0.755328
window11801

overview

Window 1

Location 19,273,676 – 19,273,766
Length 90
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 80.73
Mean single sequence MFE -14.45
Consensus MFE -11.12
Energy contribution -11.40
Covariance contribution 0.28
Combinations/Pair 1.14
Mean z-score -1.51
Structure conservation index 0.77
SVM decision value 0.49
SVM RNA-class probability 0.755328
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19273676 90 + 27905053
---CCA----------------CACAAACGGCAAAUUGAAACUAAUCGAGUUUUGGCCAAAAGGCAGCUG-CCAUAAACAUAAAAAAGAAAAAUAAAU--AAGUCAGAAUCU
---...----------------.......((((....((((((.....)))))).(((....)))...))-)).........................--............ ( -13.70)
>DroPse_CAF1 84894 106 + 1
---CCAGCACCAGCACUAGCAACAC-GAGAGCAAAUUGAAACUAAUCGAGUUUCGGCCAAAAGGCAGCUG-CCAUAAACAUAAAAAAU-AAAAUAAAUACAAGUCAGAAUCU
---.((((....((.((.(.....)-.)).))....(((((((.....)))))))(((....))).))))-.................-....................... ( -16.30)
>DroSim_CAF1 71382 90 + 1
---CCA----------------UACAAACGGCAAAUUCAAACUAAUCGUGUUUUGGCCAAAAGGCAGCUG-CCAUAAACAUAAAAGAGAAAAAUAAAU--AAGUCAGAAUCU
---...----------------.......((((.....((((.......))))..(((....)))...))-)).........................--............ ( -10.90)
>DroEre_CAF1 70789 90 + 1
---CCA----------------CACAAACGGCAAAUUGAAACUAAUCGAGUUUUGGCCAAAAGGCAGCUGCCCAUAAACAUAAAA-AGAAAAAUAAAU--AAGUCAGAAUCU
---...----------------.......((((....((((((.....)))))).(((....)))...)))).............-............--............ ( -12.80)
>DroYak_CAF1 73631 83 + 1
ACGCCA----------------CACAAACGGCAAAUUGAAACUAAUCGAGUUUUGGCCAAAAGGCAGCUGGCCAUAAACAUAAA-----------AAU--AAGUCAGAAUCU
..(((.----------------.......)))...((((......))))((((((((((.........)))))).)))).....-----------...--............ ( -16.50)
>DroPer_CAF1 85017 106 + 1
---CCAGCACCAGCACCAGCAACAC-GAGAGCAAAUUGAAACUAAUCGAGUUUCGGCCAAAAGGCAGCUG-CCAUAAACAUAAAAAAU-AAAAUAAAUACAAGUCAGAAUCU
---...((....))..((((.....-..........(((((((.....)))))))(((....))).))))-.................-....................... ( -16.50)
>consensus
___CCA________________CACAAACGGCAAAUUGAAACUAAUCGAGUUUUGGCCAAAAGGCAGCUG_CCAUAAACAUAAAAAAG_AAAAUAAAU__AAGUCAGAAUCU
............................((((....(((((((.....)))))))(((....))).)))).......................................... (-11.12 = -11.40 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:24 2006