Locus 125

Sequence ID sp_mu.0
Location 169,680 – 169,792
Length 112
Max. P 0.947405
window805 window806

overview

Window 5

Location 169,680 – 169,792
Length 112
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.49
Mean single sequence MFE -30.97
Consensus MFE -25.78
Energy contribution -25.57
Covariance contribution -0.22
Combinations/Pair 1.15
Mean z-score -1.83
Structure conservation index 0.83
SVM decision value 1.37
SVM RNA-class probability 0.947405
Prediction RNA

Download alignment: ClustalW | MAF

>sp_mu.0 169680 112 + 2030921/0-120
CUCCUAUACGAA--UC--UUUAUGUUUACA-AUGUGGAUGUUCCGGUCCAC---AAAUUAUUUGAAGGGUUCCGGGGCCUUUCAAAUGGGGCAAACAAUACCGCCUUAUAUAAUAUCAAA
.........((.--..--.((((((.....-.(((((((......))))))---)...(((((((((((((....)))))))))))))((((..........)))).))))))..))... ( -28.90)
>sp_ag.0 230687 116 + 2160267/0-120
CUCCUAUACGAA--UUCGUUUUUGUUUACAGGUGUGGAUGUUCCGGUCCAC--GAGAGUAUUUGAAAGGUUCCGGGGCCUUACAAAUGGGGUAAACAAUACCGCUUAUAAUCAUAUCAAA
.......(((..--..)))..((((((((...(((((((......))))))--)....((((((.((((((....)))))).))))))..))))))))...................... ( -27.80)
>sp_pn.0 272273 120 + 2038615/0-120
CUCCUAUAUAUAGUUCGAUUUUUGUUUACGGUGAUGGGUGUUCCUUCCCAUCGAAAAGUAUUUGGAAGGUUCCGGGGCCUUUCAAAUGGGGUAAACAAUACCGCCUACUAUCAUACCAAA
......((((((((.((....((((((((..(((((((........))))))).....(((((((((((((....)))))))))))))..))))))))...))...))))).)))..... ( -36.20)
>consensus
CUCCUAUACGAA__UC__UUUUUGUUUACAGAUGUGGAUGUUCCGGUCCAC___AAAGUAUUUGAAAGGUUCCGGGGCCUUUCAAAUGGGGUAAACAAUACCGCCUAAUAUCAUAUCAAA
......................(((((((....((((((......)))))).......(((((((((((((....)))))))))))))..)))))))....................... (-25.78 = -25.57 +  -0.22) 
# Strand winner: reverse (1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 169,680 – 169,792
Length 112
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.49
Mean single sequence MFE -30.87
Consensus MFE -25.78
Energy contribution -25.57
Covariance contribution -0.22
Combinations/Pair 1.15
Mean z-score -1.79
Structure conservation index 0.84
SVM decision value 1.31
SVM RNA-class probability 0.940067
Prediction RNA

Download alignment: ClustalW | MAF

>sp_mu.0 169680 112 + 2030921/3-123
UUUCUCCUAUACGAA--UC--UUUAUGUUUACA-AUGUGGAUGUUCCGGUCCAC---AAAUUAUUUGAAGGGUUCCGGGGCCUUUCAAAUGGGGCAAACAAUACCGCCUUAUAUAAUAUC
...............--..--.((((((.....-.(((((((......))))))---)...(((((((((((((....)))))))))))))((((..........)))).)))))).... ( -28.50)
>sp_ag.0 230687 116 + 2160267/3-123
UUUCUCCUAUACGAA--UUCGUUUUUGUUUACAGGUGUGGAUGUUCCGGUCCAC--GAGAGUAUUUGAAAGGUUCCGGGGCCUUACAAAUGGGGUAAACAAUACCGCUUAUAAUCAUAUC
.(((((((..(((((--......)))))....))..((((((......))))))--))))).(((((.((((((....)))))).)))))(.((((.....)))).)............. ( -27.90)
>sp_pn.0 272273 120 + 2038615/3-123
UUUCUCCUAUAUAUAGUUCGAUUUUUGUUUACGGUGAUGGGUGUUCCUUCCCAUCGAAAAGUAUUUGGAAGGUUCCGGGGCCUUUCAAAUGGGGUAAACAAUACCGCCUACUAUCAUACC
.........((((((((.((....((((((((..(((((((........))))))).....(((((((((((((....)))))))))))))..))))))))...))...))))).))).. ( -36.20)
>consensus
UUUCUCCUAUACGAA__UC__UUUUUGUUUACAGAUGUGGAUGUUCCGGUCCAC___AAAGUAUUUGAAAGGUUCCGGGGCCUUUCAAAUGGGGUAAACAAUACCGCCUAAUAUCAUAUC
.........................(((((((....((((((......)))))).......(((((((((((((....)))))))))))))..))))))).................... (-25.78 = -25.57 +  -0.22) 
# 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 19:01:50 2006