Locus 163

Sequence ID	pao.115
Location	227,141 – 227,292
Length	151
Max. P	0.952668

overview

Window 6

Location	227,141 – 227,261
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	64.58
Mean single sequence MFE	-37.73
Consensus MFE	-19.02
Energy contribution	-21.90
Covariance contribution	2.88
Combinations/Pair	1.33
Mean z-score	-1.88
Structure conservation index	0.50
SVM decision value	1.42
SVM RNA-class probability	0.952668
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.115 227141 120 + 6264404
GCCUUUCAGGAAUAUUUUUCAUGCCCGCAAGGCAUGGGUUUUUCGUCGGAUCGCUGUAGCCCGCCAACCACGCGGCCUGUGGCGAUAGGGGCGAAACCCAUAGCUCCAGAAGUUAUUUCC
........((((.((((((...((((....)).(((((((..(((((..(((((..(((.((((.......)))).)))..)))))...)))))))))))).))...))))))...)))) ( -46.00)
>pau.114 223877 120 + 6537648
GCCUUUCAGGAAUAUUUUUCAUGCCCGCAAGGCAUGGGUUUUUCGUCGGAUCGCUGUAGCCCGCCAACCACGCGGCCUGUGGCGUGAUGGGCGAAACCCAUAGCUCCAGAAGUUAUUUCC
........((((.((((((...((((....)).(((((((..(((((.(..(((..(((.((((.......)))).)))..)))...).)))))))))))).))...))))))...)))) ( -43.10)
>pf5.134 262213 120 + 7074893
GCUUUGCAGGAAUAUUUUCGAUGCCCGCAAGGCAUGGUGUUUUUCCCUCUUGGCUGCAGCCCUUGAACCACGGGGCCUGGGGCUUUUUCGCGAAAUCAUGUAUUCGAUUUCGAUCUAUCU
.....((.((((......(.((((.(....))))).).....)))).....((((.(((((((........)))).))).)))).....))((((((........))))))......... ( -35.40)
>pel.3042 291593 120 - 5888780
GCCUUACGCGAAUAUUUCAUAUGCCCACAAGGCAUCAACCAAGCACCCUAUCGCCACACCCCAUGAAAACCGGGGCUUAGAGGUAAUCUCUCAAAAUAAAUAUUCCAAAAGGCUAUAACU
(((((..(.((((((((...(((((.....)))))..(((..((........))....((((.........))))......))).............)))))))))..)))))....... ( -26.40)
>consensus
GCCUUUCAGGAAUAUUUUUCAUGCCCGCAAGGCAUGGGUUUUUCGCCGGAUCGCUGCAGCCCGCCAACCACGCGGCCUGGGGCGAUAUGGGCAAAACACAUAGCCCAAGAAGUUAUAUCC
(((((.(.((.((.......)).)).).)))))(((((((..(((((....(((..(((.(((((.....))))).)))..))).....))))))))))))................... (-19.02 = -21.90 +   2.88)

alignment

secondary structure

dotplot

Window 7

Location	227,172 – 227,292
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	62.22
Mean single sequence MFE	-34.02
Consensus MFE	-15.78
Energy contribution	-18.54
Covariance contribution	2.75
Combinations/Pair	1.47
Mean z-score	-1.80
Structure conservation index	0.46
SVM decision value	0.86
SVM RNA-class probability	0.868780
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.115 227172 120 + 6264404
GCAUGGGUUUUUCGUCGGAUCGCUGUAGCCCGCCAACCACGCGGCCUGUGGCGAUAGGGGCGAAACCCAUAGCUCCAGAAGUUAUUUCCAUAACAAAAAUAAUUACUUCAGGCGCUAAGC
((.((((((..(((((..(((((..(((.((((.......)))).)))..)))))...)))))))))))((((.((.(((((.(((..............))).))))).)).)))).)) ( -46.54)
>pau.114 223908 120 + 6537648
GCAUGGGUUUUUCGUCGGAUCGCUGUAGCCCGCCAACCACGCGGCCUGUGGCGUGAUGGGCGAAACCCAUAGCUCCAGAAGUUAUUUCCAUAACAAAAAUAAUUACUUCAGGCGCUAAGC
((.((((((..(((((.(..(((..(((.((((.......)))).)))..)))...).)))))))))))((((.((.(((((.(((..............))).))))).)).)))).)) ( -43.64)
>pf5.134 262244 120 + 7074893
GCAUGGUGUUUUUCCCUCUUGGCUGCAGCCCUUGAACCACGGGGCCUGGGGCUUUUUCGCGAAAUCAUGUAUUCGAUUUCGAUCUAUCUAUAACUUGAAAGAUUACUUUAAGAGAUAAGC
((..((.......))(((((((((.(((((((........)))).))).)))........((((((........))))))(((((.((........)).)))))....))))))....)) ( -30.60)
>pel.3042 291624 120 - 5888780
GCAUCAACCAAGCACCCUAUCGCCACACCCCAUGAAAACCGGGGCUUAGAGGUAAUCUCUCAAAAUAAAUAUUCCAAAAGGCUAUAACUUUAAUUUUAAACAUUACUUUAUGAACUAAGC
...........((....(((.(((...((((.........))))....((((.....))))..................))).)))..............(((......)))......)) ( -15.30)
>consensus
GCAUGGGUUUUUCGCCGGAUCGCUGCAGCCCGCCAACCACGCGGCCUGGGGCGAUAUGGGCAAAACACAUAGCCCAAGAAGUUAUAUCCAUAACAAAAAAAAUUACUUCAGGAGCUAAGC
((.((((((..(((((....(((..(((.(((((.....))))).)))..))).....)))))))))))((((.((.((((........................)))).)).)))).)) (-15.78 = -18.54 +   2.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:16:14 2007