Locus 1274

Sequence ID X_DroMel_CAF1
Location 3,806,926 – 3,807,046
Length 120
Max. P 0.651759
window2042

overview

Window 2

Location 3,806,926 – 3,807,046
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.56
Mean single sequence MFE -43.68
Consensus MFE -20.55
Energy contribution -21.58
Covariance contribution 1.03
Combinations/Pair 1.40
Mean z-score -1.97
Structure conservation index 0.47
SVM decision value 0.25
SVM RNA-class probability 0.651759
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3806926 120 + 22224390
UGCUCCAGUUGCUUCUCAUGGCUCAUUUCCUUGGAGUUGAGCAGCUGAUCGAAUUGCUCUGAUUGCAGCUGGAGUUGUGUGAUCUCGGCACUCUGCCUGGCCACCAAUUGCAGCUGUUCU
.....((((((((((((..((.......))...)))..))))))))).................(((((((.(((((.(((..(..(((.....))).)..)))))))).)))))))... ( -42.90)
>DroVir_CAF1 7606 120 + 1
UGCUCCAUGUGCUUCUCGUAUGCCAUUUCGCUUUUGUUUAGCGACUGAUCGAACUGCUCCGCCUGCAGCUGCAGCUGCACCAGCUCUGCGCUCUGGCUGGCUAUCAGUUGCAGGUGCUCC
.((...(((.((.........))))).(((((.......)))))...........))..((((((((((((.((((((...(((.....)))...)).))))..)))))))))))).... ( -38.40)
>DroPse_CAF1 5216 120 + 1
UGCUCCAUGUACUUCUCGUGGCCCAUUUCCUUGUUGUUUAGCACUUGAUGGAACUGCUCCACCUGCUGCUGGAGCUGCGUCAGCUUGGCUUCCUGCGAGGCUAUCAGCUGCAGGUGUUCG
.((.(((((.......))))).(((((....(((......)))...)))))....))..(((((((.((((((((((...))))))((((((....))))))..)))).))))))).... ( -43.40)
>DroMoj_CAF1 3674 120 + 1
UGCUCCAUGUGCUUCUCGUGCGCCAUUUCGCUGUUGUUCAGCGACUGAUCGAAGCGUUCCGCCUGCAGCUGCAGCUGCACCAGCUCAGCACUCUGGCUGGCUAUCAGCUGCAGAUGCUCC
.(((.(..((((.......))))....((((((.....))))))......).))).........(((.(((((((((..(((((.(((....))))))))....))))))))).)))... ( -47.70)
>DroAna_CAF1 6038 120 + 1
UGCUCCAGCUGCUUCUCGUGGCUCAUCUCCUUGGUGUCCAGCAGCUGGUCGAACUGCUCCACCCGCAGCUGCAGCUGGGUGAUCUCGGCGCUCUGCUUGGCCACCAGCUGGAGGUGAUCC
..(((((((((......((((((.........((((...(((((.........))))).)))).((((..((.((((((....)))))))).))))..)))))))))))))))....... ( -50.40)
>DroPer_CAF1 5228 120 + 1
UGCUCCAUGUACUUCUCGUGACCCAUUUCCUUGUUGUUUAGGACUUGAUGGAACUGCUCCACCUGCUGCUGGAGCUGCGUCAGCUUGGCUUCCUGCGAAGCUAUCUGCUGCAGGUGUUCG
.((..((((.......))))..(((((((((........))))...)))))....))..(((((((.((..((((((...))))))((((((....))))))....)).))))))).... ( -39.30)
>consensus
UGCUCCAUGUGCUUCUCGUGGCCCAUUUCCUUGUUGUUUAGCAACUGAUCGAACUGCUCCACCUGCAGCUGCAGCUGCGUCAGCUCGGCACUCUGCCUGGCUAUCAGCUGCAGGUGUUCC
.....((.(((((...((.((........))...))...))))).))............((((((((((((.((((.....)))).(((..........)))..)))))))))))).... (-20.55 = -21.58 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:30 2006