Locus 44

Sequence ID	Banth.0
Location	2,224,998 – 2,225,110
Length	112
Max. P	0.999981

overview

Window 3

Location	2,224,998 – 2,225,110
Length	112
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	73.47
Mean single sequence MFE	-47.23
Consensus MFE	-35.40
Energy contribution	-33.65
Covariance contribution	-1.75
Combinations/Pair	1.32
Mean z-score	-4.64
Structure conservation index	0.75
SVM decision value	5.27
SVM RNA-class probability	0.999981
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 2224998 112 + 5227293/141-261
CCGUGUAAACGACGUUACCGUAAAAGAAGCCAU-----UGCAUGUUU-G-UGAUGGGAAUCUGGGUGGAACCACGGGU-AUAAGCACGCUCGUCCCUAUUGUAGGGAUGAGUGUGCUUUU
(((((........(((.((((...(((..((((-----..((....)-)-..))))...)))..))))))))))))..-..(((((((((((((((((...))))))))))))))))).. ( -47.60)
>Bcere.0 2309135 113 + 5224283/141-261
CCGUGUAAACGACGUUACCGUAAAUGAAGCCAU-----UAUGUUUUUUA-UGAUGGGAAUCUGGGUGGAACCACGGGU-AUAAGCACGCUCGUCCCUAUUUUAGGGAUGAGUGUGCUUUU
.(((....)))......((((........((((-----((((.....))-))))))......((......))))))..-..(((((((((((((((((...))))))))))))))))).. ( -45.20)
>Bclau.0 161187 117 - 4303871/141-261
CCGUUUAUGCUACGUUACAGCAC-CAAAGCCAUAAGUUUUUCUUUUUAGCUUAUGGGAAAUUGGGUGGAACCACGGGU-A-GAACGCACUCGUCCCUUCUUGAGGGAUGGGUGUGUUUUU
((((.....((((((....)).(-(((..(((((((((.........)))))))))....))))))))....))))..-(-(((((((((((((((((...)))))))))))))))))). ( -46.90)
>Bsubt.0 358902 113 - 4214630/141-261
CCGUCUAUGCUGCGUUACAGCAC-CGAGCCGACAA---CAUAGUAUU---UGUCGGGAACUUGGGUGGAACCACGGGUUAAUCACACACUCGUCCCUAUCUGUGGGACGGGUGUGUUUUU
((((((((((((.....)))).(-(((((((((((---........)---))))))...))))))))))....))).......(((((((((((((.......))))))))))))).... ( -49.20)
>consensus
CCGUGUAAACGACGUUACAGCAA_CGAAGCCAU_____UAUAUUUUU_G_UGAUGGGAAUCUGGGUGGAACCACGGGU_AUAAACACACUCGUCCCUAUUUGAGGGAUGAGUGUGCUUUU
((((....(((.......))).........................................((......)))))).....((((((((((((((((.....)))))))))))))))).. (-35.40 = -33.65 +  -1.75)

alignment

secondary structure

dotplot

Window 4

Location	2,224,998 – 2,225,110
Length	112
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	73.47
Mean single sequence MFE	-34.23
Consensus MFE	-23.06
Energy contribution	-23.62
Covariance contribution	0.56
Combinations/Pair	1.16
Mean z-score	-2.95
Structure conservation index	0.67
SVM decision value	4.51
SVM RNA-class probability	0.999912
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 2224998 112 + 5227293/141-261
AAAAGCACACUCAUCCCUACAAUAGGGACGAGCGUGCUUAU-ACCCGUGGUUCCACCCAGAUUCCCAUCA-C-AAACAUGCA-----AUGGCUUCUUUUACGGUAACGUCGUUUACACGG
..((((((.(((.((((((...)))))).))).))))))..-..(((((.........(((...((((..-(-(....))..-----))))..)))...(((....)))......))))) ( -33.90)
>Bcere.0 2309135 113 + 5224283/141-261
AAAAGCACACUCAUCCCUAAAAUAGGGACGAGCGUGCUUAU-ACCCGUGGUUCCACCCAGAUUCCCAUCA-UAAAAAACAUA-----AUGGCUUCAUUUACGGUAACGUCGUUUACACGG
..((((((.(((.((((((...)))))).))).))))))..-..(((((..........((...((((.(-(.......)).-----))))..))....(((....)))......))))) ( -32.20)
>Bclau.0 161187 117 - 4303871/141-261
AAAAACACACCCAUCCCUCAAGAAGGGACGAGUGCGUUC-U-ACCCGUGGUUCCACCCAAUUUCCCAUAAGCUAAAAAGAAAAACUUAUGGCUUUG-GUGCUGUAACGUAGCAUAAACGG
...(((.(((.(.(((((.....))))).).))).))).-.-..((((........((((....(((((((.............)))))))..)))-)(((((.....)))))...)))) ( -29.12)
>Bsubt.0 358902 113 - 4214630/141-261
AAAAACACACCCGUCCCACAGAUAGGGACGAGUGUGUGAUUAACCCGUGGUUCCACCCAAGUUCCCGACA---AAUACUAUG---UUGUCGGCUCG-GUGCUGUAACGCAGCAUAGACGG
....((((((.((((((.......)))))).)))))).........(((....)))((......((((((---(........---))))))).((.-((((((.....)))))).)).)) ( -41.70)
>consensus
AAAAACACACCCAUCCCUAAAAUAGGGACGAGCGUGCUUAU_ACCCGUGGUUCCACCCAAAUUCCCAUCA_C_AAAAAUAUA_____AUGGCUUCG_GUACGGUAACGUAGCAUACACGG
..((((((((((.(((((.....))))).)))))))))).....((((((......)).........................................((((.....))))....)))) (-23.06 = -23.62 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:19:24 2006