Locus 32

Sequence ID 4_DroMel_CAF1
Location 288,876 – 288,990
Length 114
Max. P 0.987879
window54 window55

overview

Window 4

Location 288,876 – 288,990
Length 114
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 77.97
Mean single sequence MFE -27.37
Consensus MFE -15.97
Energy contribution -16.20
Covariance contribution 0.23
Combinations/Pair 1.09
Mean z-score -2.86
Structure conservation index 0.58
SVM decision value 2.10
SVM RNA-class probability 0.987879
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 288876 114 + 1281640
AA-AACUUUUAGUUACAAGAAUUAACUUUUUUGAAAUAGAUGUCCACUUAUUUUGACCAAUUGAGUGG-ACCUUGCAAAGAUCUAUUUCAAAAUAAAAAUUA----UGCUGGCUUAUAAG
..-..(((..(((((((..((((.....((((((((((((((((((((((...........)))))))-))((.....)))))))))))))))....)))).----)).)))))...))) ( -27.10)
>DroSim_CAF1 419 115 + 1
GA-AACUUUUAGUUAAGAGGCUUAACUUUUUUGAAAUAGAUGUCCACUUAUUUUGACCAAUUGAGUGGAACCUUGCCAAAAUCUAUUUCAAAAUAAAAAUUA----UGUUGCCUUAUAAU
..-........((((.(((((.(((...(((((((((((((.((((((((...........))))))))...........)))))))))))))......)))----....))))).)))) ( -27.80)
>DroYak_CAF1 400 118 + 1
GAGAAGCUUCUGUUAAGUGAUUAAAGUUUUGUGAAAUAGAUGCCCACUCAA-CUGACCAAUUGAGAGG-AGCUUGCAAAGAUCUAUUUCAGAAUAAGAAUUACAUAUUUUGCUUUACUUC
..(((((......((.((((((......((.((((((((((((((.(((((-........))))).))-.))........)))))))))).))....)))))).))....)))))..... ( -27.20)
>consensus
GA_AACUUUUAGUUAAGAGAAUUAACUUUUUUGAAAUAGAUGUCCACUUAUUUUGACCAAUUGAGUGG_ACCUUGCAAAGAUCUAUUUCAAAAUAAAAAUUA____UGUUGCCUUAUAAC
............................((((((((((((((((((((((...........)))))))......))....)))))))))))))........................... (-15.97 = -16.20 +   0.23) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 288,876 – 288,990
Length 114
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 77.97
Mean single sequence MFE -24.80
Consensus MFE -14.41
Energy contribution -14.53
Covariance contribution 0.11
Combinations/Pair 1.06
Mean z-score -2.47
Structure conservation index 0.58
SVM decision value 1.33
SVM RNA-class probability 0.942346
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 288876 114 - 1281640
CUUAUAAGCCAGCA----UAAUUUUUAUUUUGAAAUAGAUCUUUGCAAGGU-CCACUCAAUUGGUCAAAAUAAGUGGACAUCUAUUUCAAAAAAGUUAAUUCUUGUAACUAAAAGUU-UU
.(((((((......----((((((((...(((((((((((((.....))((-(((((..(((......))).))))))))))))))))))))))))))...))))))).........-.. ( -24.90)
>DroSim_CAF1 419 115 - 1
AUUAUAAGGCAACA----UAAUUUUUAUUUUGAAAUAGAUUUUGGCAAGGUUCCACUCAAUUGGUCAAAAUAAGUGGACAUCUAUUUCAAAAAAGUUAAGCCUCUUAACUAAAAGUU-UC
.......(....).----.(((((((.(((((((((((((.........((.(((((..(((......))).)))))))))))))))))))).(((((((...))))))))))))))-.. ( -23.90)
>DroYak_CAF1 400 118 - 1
GAAGUAAAGCAAAAUAUGUAAUUCUUAUUCUGAAAUAGAUCUUUGCAAGCU-CCUCUCAAUUGGUCAG-UUGAGUGGGCAUCUAUUUCACAAAACUUUAAUCACUUAACAGAAGCUUCUC
(((((...(((.....)))...........((((((((((........((.-((.(((((((....))-))))).))))))))))))))........................))))).. ( -25.60)
>consensus
AUUAUAAGGCAACA____UAAUUUUUAUUUUGAAAUAGAUCUUUGCAAGGU_CCACUCAAUUGGUCAAAAUAAGUGGACAUCUAUUUCAAAAAAGUUAAAUCUCUUAACUAAAAGUU_UC
...........................(((((((((((((.((..(......((........)).........)..)).)))))))))))))............................ (-14.41 = -14.53 +   0.11) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:02 2006