Locus 94

Sequence ID sy_ha.0
Location 2,632,367 – 2,632,482
Length 115
Max. P 0.513953
window483 window484

overview

Window 3

Location 2,632,367 – 2,632,482
Length 115
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 83.67
Mean single sequence MFE -26.29
Consensus MFE -19.47
Energy contribution -19.37
Covariance contribution -0.10
Combinations/Pair 1.19
Mean z-score -1.63
Structure conservation index 0.74
SVM decision value -0.04
SVM RNA-class probability 0.513953
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 2632367 115 + 2685015
UAUUGUAAAAAGUAAUACUCUGUGCUAUAAUUCUUGAUUGUGAGUAAUGAAAAUUAUUCCUUGCUUAUCGUUAGUA--UUCGAUAGGCCGCAUAGACCACAAGGAGGUGCAAGUAUA
..............(((((.((..((....((((((.....(((((((....)))))))...((((((((......--..))))))))...........))))))))..))))))). ( -29.50)
>sy_au.0 2366731 117 - 2809422
UAUUGUAAAAAGUAAUGGCGCAUGAUAUAAUUCUUUAUUGUGAGUAAUGAAAAUUAUUCCUUGCUUAUCUGUUUUAAGAUUGAUAAGCCGUAUAGACCACAAGGAGGUGCAAAUAUA
.................((((..........(((.(((...(((((((....)))))))...(((((((.(((....))).))))))).))).)))((....))..))))....... ( -22.50)
>sy_sa.0 2439700 114 + 2516575
CAUUGUAAAAUGUAAAGGCAUGUGCUAUAAUUCUUGAUUGUGAGUAAUGAAAAUUAUUCCUUGCUUAUCACAUUU---GAUGAUGAGCCGCAUAGACCACAAGGAGGUGCAAUUAUA
.((((((.........((..(((((................(((((((....)))))))...(((((((((....---).)))))))).)))))..)).........)))))).... ( -26.87)
>consensus
UAUUGUAAAAAGUAAUGGCAUGUGCUAUAAUUCUUGAUUGUGAGUAAUGAAAAUUAUUCCUUGCUUAUCACUUUUA__AUUGAUAAGCCGCAUAGACCACAAGGAGGUGCAAAUAUA
..(((((.............(((((................(((((((....)))))))...((((((((..........)))))))).)))))..((....))...)))))..... (-19.47 = -19.37 +  -0.10) 
# Strand winner: reverse (1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 2,632,367 – 2,632,482
Length 115
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 83.67
Mean single sequence MFE -26.29
Consensus MFE -19.47
Energy contribution -19.37
Covariance contribution -0.10
Combinations/Pair 1.19
Mean z-score -1.63
Structure conservation index 0.74
SVM decision value -0.04
SVM RNA-class probability 0.513953
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 2632367 115 + 2685015/0-117
UAUUGUAAAAAGUAAUACUCUGUGCUAUAAUUCUUGAUUGUGAGUAAUGAAAAUUAUUCCUUGCUUAUCGUUAGUA--UUCGAUAGGCCGCAUAGACCACAAGGAGGUGCAAGUAUA
..............(((((.((..((....((((((.....(((((((....)))))))...((((((((......--..))))))))...........))))))))..))))))). ( -29.50)
>sy_au.0 2366731 117 - 2809422/0-117
UAUUGUAAAAAGUAAUGGCGCAUGAUAUAAUUCUUUAUUGUGAGUAAUGAAAAUUAUUCCUUGCUUAUCUGUUUUAAGAUUGAUAAGCCGUAUAGACCACAAGGAGGUGCAAAUAUA
.................((((..........(((.(((...(((((((....)))))))...(((((((.(((....))).))))))).))).)))((....))..))))....... ( -22.50)
>sy_sa.0 2439700 114 + 2516575/0-117
CAUUGUAAAAUGUAAAGGCAUGUGCUAUAAUUCUUGAUUGUGAGUAAUGAAAAUUAUUCCUUGCUUAUCACAUUU---GAUGAUGAGCCGCAUAGACCACAAGGAGGUGCAAUUAUA
.((((((.........((..(((((................(((((((....)))))))...(((((((((....---).)))))))).)))))..)).........)))))).... ( -26.87)
>consensus
UAUUGUAAAAAGUAAUGGCAUGUGCUAUAAUUCUUGAUUGUGAGUAAUGAAAAUUAUUCCUUGCUUAUCACUUUUA__AUUGAUAAGCCGCAUAGACCACAAGGAGGUGCAAAUAUA
..(((((.............(((((................(((((((....)))))))...((((((((..........)))))))).)))))..((....))...)))))..... (-19.47 = -19.37 +  -0.10) 
# Strand winner: reverse (1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:57:16 2006