Locus 6400

Sequence ID 2R_DroMel_CAF1
Location 20,015,780 – 20,015,878
Length 98
Max. P 0.520440
window10214

overview

Window 4

Location 20,015,780 – 20,015,878
Length 98
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 82.58
Mean single sequence MFE -23.40
Consensus MFE -14.49
Energy contribution -14.68
Covariance contribution 0.19
Combinations/Pair 1.05
Mean z-score -1.90
Structure conservation index 0.62
SVM decision value -0.03
SVM RNA-class probability 0.520440
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20015780 98 - 20766785
AAAUGUUACAAAACAAUUAAAAAGUUGCCGACUUUCAUGAGUCAAUCAAAAGA--GA-GGCAGCCGCAACGAGUUCCG---CUGCGA---GAAGUUGCCCAACUUUG-
...((((....)))).....(((((((..(((((....)))))..........--..-((((((((((.((.....))---.)))).---...))))))))))))).- ( -26.00)
>DroPse_CAF1 34758 94 - 1
AAAUGUUGCAGAACAAUUAAAAAGUUGUGGACUUUCAUGAGUCAAUCAAACGA--CU-GAGAACCGCAACGACUUUCU------CGA---G-AGUUGCUCAACUUUG-
....((((.((............(((((((...(((.(.((((........))--))-.)))))))))))((((((..------..)---)-)))).))))))....- ( -22.60)
>DroEre_CAF1 38505 99 - 1
AAAUGUUACAAAACAAUUAAAAAGUUGACGACUUGCAUGAGUCAAUCAAAGGA--GA-GGCAGCCACGACGAGUUCCG-----CCAAGUUGCAGUUGCCCAACUUUG-
...((((....)))).....(((((((..(((((....)))))..........--..-((((((..((((........-----....))))..))))))))))))).- ( -24.50)
>DroYak_CAF1 37990 103 - 1
AAAUGUUACAAAACAAUUAAAAAGUUGCCGACUUUCAUGAGUCAAUCAAAAGAGAGA-GGCAGCCGCAACGAGUUCCCUCCCUCCGA---GAAGUUGCCCAACUUUG-
...((((....)))).....(((((((.((((((((.(((.....)))...(((.((-((.(((((...)).))).)))).))).))---).)))))..))))))).- ( -24.50)
>DroAna_CAF1 34675 95 - 1
AAAUGUUACAAAACAAUUAAAAAGUUGCAGACUUUCAUGAGUCAAUCAAAAGA--CCGGGAAACCGCAACGAGUUUC--------UA---AAAGUUGCCCAAGUUUGC
...((((....))))...........((((((((....(.(((........))--))((....))(((((.......--------..---...)))))..)))))))) ( -20.20)
>DroPer_CAF1 35676 94 - 1
AAAUGUUGCAGAACAAUUAAAAAGUUGUGGACUUUCAUGAGUCAAUCAAACGA--CU-GAGAACCGCAACGACUUUCU------CGA---G-AGUUGCUCAACUUUG-
....((((.((............(((((((...(((.(.((((........))--))-.)))))))))))((((((..------..)---)-)))).))))))....- ( -22.60)
>consensus
AAAUGUUACAAAACAAUUAAAAAGUUGCCGACUUUCAUGAGUCAAUCAAAAGA__CA_GGCAACCGCAACGAGUUCCG______CGA___GAAGUUGCCCAACUUUG_
...((((....)))).....(((((((..(((((....)))))......................(((((.......................))))).))))))).. (-14.49 = -14.68 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:04 2006