Locus 67

Sequence ID	Bclau.0
Location	1,830,234 – 1,830,349
Length	115
Max. P	0.999877

overview

Window 5

Location	1,830,234 – 1,830,349
Length	115
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	65.25
Mean single sequence MFE	-47.38
Consensus MFE	-36.19
Energy contribution	-34.62
Covariance contribution	-1.56
Combinations/Pair	1.53
Mean z-score	-4.43
Structure conservation index	0.76
SVM decision value	4.35
SVM RNA-class probability	0.999877
Prediction	RNA

Download alignment: ClustalW | MAF

>Bclau.0 1830234 115 - 4303871/187-307
UGCGUGCUGCCUACGUUAACGGCGUGAAGUGGAAAAGGCGCUAG--CGCUUUUUCUAUGAGGGUGGUACCGCGGGA---AAACCUUCUCGUCCCUUUUUGGGACGGGGAGGUUUUUGUUU
.((((((..(((((((.....))))...((((((((((((....--))))))))))))..)))..))).)))..((---(((((((((((((((.....))))))))))))))))).... ( -61.60)
>Bhalo.0 1529874 112 - 4202352/187-307
CAUGC-CUGUUAACAAUGACACGAGGGAACAAGCAAAGAA-UGU--CGUUUGUUC-ACUAGGGUGGUACCGCGGGA---AUACCUUCUCGUCCCUAAUGGGGAUGGGGAGGUUUUUAUUU
....(-((((.....((.((...((.((((((((......-...--.))))))))-.))...)).))...))))).---..(((((((((((((.....)))))))))))))........ ( -39.50)
>Bsubt.0 1612356 115 + 4214630/187-307
GACGUUC-AUC-ACGUUACGAUGCUCAAGAGGAAAAAGUGUAUGCUUGCUUUUUCUAAAAGGGUGGUACCGCGAGAU--AAGCUUUCUCGUCCCUUAU-GGGAUGAGAGGGCUUUUUUUA
(((((..-...-))))).....((......((((((((((......))))))))))....((......))))((((.--(((((((((((((((....-))))))))))))))).)))). ( -42.50)
>Blich.0 1717496 115 + 4222334/187-307
GACGUCCCAUC-ACGUUACGAUGUUUGAGCGGAUAAGCCGAAU---CGGCUUGUCUAAAAGGGUGGUACCGCGAGAUCAAAGCCUUCUCGUCCCUUAU-GGGAUGAAAAGGCUUUUUUUG
...((.(((((-.((((.(((...)))))))(((((((((...---)))))))))......))))).))..(((((..((((((((.(((((((....-))))))).))))))))))))) ( -45.90)
>consensus
GACGU_CUAUC_ACGUUAACAUGAUGAAGCGGAAAAAGCG_AUG__CGCUUUUUCUAAAAGGGUGGUACCGCGAGA___AAACCUUCUCGUCCCUUAU_GGGAUGAGAAGGCUUUUUUUU
..(((.........................((((((((((......))))))))))....((......)))))......(((((((((((((((.....)))))))))))))))...... (-36.19 = -34.62 +  -1.56)

alignment

secondary structure

dotplot

Window 6

Location	1,830,234 – 1,830,349
Length	115
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	65.25
Mean single sequence MFE	-31.53
Consensus MFE	-16.81
Energy contribution	-18.75
Covariance contribution	1.94
Combinations/Pair	1.29
Mean z-score	-2.32
Structure conservation index	0.53
SVM decision value	2.81
SVM RNA-class probability	0.997181
Prediction	RNA

Download alignment: ClustalW | MAF

>Bclau.0 1830234 115 - 4303871/187-307
AAACAAAAACCUCCCCGUCCCAAAAAGGGACGAGAAGGUUU---UCCCGCGGUACCACCCUCAUAGAAAAAGCG--CUAGCGCCUUUUCCACUUCACGCCGUUAACGUAGGCAGCACGCA
.....(((((((.(.((((((.....)))))).).))))))---)...(((((............(((((.(((--....))).)))))........(((.........))).)).))). ( -36.10)
>Bhalo.0 1529874 112 - 4202352/187-307
AAAUAAAAACCUCCCCAUCCCCAUUAGGGACGAGAAGGUAU---UCCCGCGGUACCACCCUAGU-GAACAAACG--ACA-UUCUUUGCUUGUUCCCUCGUGUCAUUGUUAACAG-GCAUG
.........(((.......(((....)))(((((..(((((---(.....))))))........-((((((.((--(..-....))).)))))).)))))............))-).... ( -22.80)
>Bsubt.0 1612356 115 + 4214630/187-307
UAAAAAAAGCCCUCUCAUCCC-AUAAGGGACGAGAAAGCUU--AUCUCGCGGUACCACCCUUUUAGAAAAAGCAAGCAUACACUUUUUCCUCUUGAGCAUCGUAACGU-GAU-GAACGUC
......((((..((((.((((-....)))).))))..))))--.(((((((.(((....(((...(((((((..........))))))).....)))....))).)))-)).-))..... ( -28.70)
>Blich.0 1717496 115 + 4222334/187-307
CAAAAAAAGCCUUUUCAUCCC-AUAAGGGACGAGAAGGCUUUGAUCUCGCGGUACCACCCUUUUAGACAAGCCG---AUUCGGCUUAUCCGCUCAAACAUCGUAACGU-GAUGGGACGUC
.....(((((((((((.((((-....)))).)))))))))))(((.((((((.......(.....)..((((((---...))))))..)))).....(((((.....)-)))).)).))) ( -38.50)
>consensus
AAAAAAAAACCUCCCCAUCCC_AUAAGGGACGAGAAGGCUU___UCCCGCGGUACCACCCUUUUAGAAAAAGCG__CAA_CGCCUUUUCCGCUCCAACAUCGUAACGU_GACAG_ACGUC
......((((((((((.((((.....)))).)))))))))).........((.....))......(((((((((......)))))))))................(((.......))).. (-16.81 = -18.75 +   1.94)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:20:56 2006