Locus 1687

Sequence ID 2R_DroMel_CAF1
Location 6,392,301 – 6,392,421
Length 120
Max. P 0.840914
window2812

overview

Window 2

Location 6,392,301 – 6,392,421
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.61
Mean single sequence MFE -40.85
Consensus MFE -25.32
Energy contribution -24.71
Covariance contribution -0.61
Combinations/Pair 1.50
Mean z-score -2.22
Structure conservation index 0.62
SVM decision value 0.75
SVM RNA-class probability 0.840914
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6392301 120 + 20766785
AAGGCGGGCAACAUGUGCGCCAUCGGCUGCAUGGAUCCGAUAAUCACAGUCUGGGAUCUAGACAUACAGGACGCUAUCGAGCCCACAUUUAAGCUGGGUUCCAAAGGCAGCCGGAAGCAG
..((((.((.....)).)))).((((((((((((.((((.....)...((((((...)))))).....)))..)))).((((((((......).))))))).....))))))))...... ( -45.60)
>DroVir_CAF1 31694 120 + 1
AAGCCAGGUAAUAUGUGCGCCAUCGGCUGCAUGGAUCCGAUUAUCACCAUCUGGGAUCUGGAUAUACAGGAUUCCAUUGAGCCGACAUUCAAGCUUGGCUCAAAGGGUAAUCGCAAAAAA
..((..((...((((((.(((...)))))))))...))(((((((......(((((((((......)).)))))))((((((((((......).)))))))))..)))))))))...... ( -40.80)
>DroGri_CAF1 35930 120 + 1
AAGGCUGGGAAUAUGUGUGCCAUUGGCUGCAUGGAUCCGAUCAUUACCAUUUGGGAUCUGGACAUACAAGACUCCAUGGAGCCAACGUUCAAGCUGGGCUCCAAGGGCAAUCGCAAGAAG
..(..((((..((((((.(((...)))))))))..))))..)....((...(((..((((......).)))..)))(((((((...((....))..))))))).))....((....)).. ( -38.00)
>DroWil_CAF1 54673 120 + 1
AAGCCAGGAAAUAUGUGCGCCAUUGGCUGCAUGGAUCCCAUAAUAACAGUCUGGGAUUUGGAUAUUCAAGAUUCGAUUGAGCCUACUUUUAAAUUGGGUUCCAAAGGCAGCCGUAAGCAA
..((((.......)).))((...(((((((.((((.((((...(((.(((..(((..((((((.......)))))).....)))))).)))...)))).))))...)))))))...)).. ( -36.80)
>DroMoj_CAF1 44761 120 + 1
AAGCCGGGCAAUAUGUGCGCCAUUGGUUGCAUGGAUCCGGUUAUCACGAUCUGGGAUCUGGAUAUACAGGAUUCCAUAGAGCCAACAUUUAAGCUUGGCUCCAAGGGCAACCGCAAAAAA
..((.(((((.....))).))...((((((((((((((.((((((..((((...))))..)))).)).))).))))).((((((((......).))))))).....))))))))...... ( -42.20)
>DroAna_CAF1 36075 120 + 1
CGGGCUGGUAACAUGUGCGCCAUAGGCUGCAUGGACCCGAUCAUCACCAUUUGGGACUUGGACAUCCAGGACUCUAUUGAGCCCACCUUUAAGUUGGGCUCCAAGGGCAGUCGCAAGCAA
.(.((((....)).)).)((....((((((((((((((((..........))))).(((((....)))))..))))).(((((((.(.....).))))))).....))))))....)).. ( -41.70)
>consensus
AAGCCAGGCAAUAUGUGCGCCAUUGGCUGCAUGGAUCCGAUAAUCACCAUCUGGGAUCUGGACAUACAGGACUCCAUUGAGCCAACAUUUAAGCUGGGCUCCAAGGGCAACCGCAAGAAA
......(((.........)))..(((((((.(((((((...............))))))).............((...(((((((.........)))))))...)))))))))....... (-25.32 = -24.71 +  -0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:38 2006