Locus 4

Sequence ID	Banth.0
Location	4,210,680 – 4,210,790
Length	110
Max. P	0.999979

overview

Window 9

Location	4,210,680 – 4,210,790
Length	110
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	73.02
Mean single sequence MFE	-33.52
Consensus MFE	-25.20
Energy contribution	-24.20
Covariance contribution	-1.00
Combinations/Pair	1.22
Mean z-score	-3.25
Structure conservation index	0.75
SVM decision value	5.20
SVM RNA-class probability	0.999979
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4210680 110 + 5227293/0-120
AAAAAACUCCCGCCUCUACUGUUUGAA-CAGUAGGGACGAGAGUAUUAUACCCGUGGUGCCACCCUAAUUGAAGCACGUA------UGCUUCCACUUUUUU---AAUAACGCUUAAAUGU
.....((((.((.(((((((((....)-)))))))).)).)))).........(((....))).......((((((....------)))))).........---................ ( -28.10)
>Bcere.0 4157872 110 + 5224283/0-120
AAAAAACUCCCGCCUCUACUGUUUGAA-CAGUAGGGACGAGAGUAUUAUACCCGUGGUGCCACCCUAAUUGAAGCACGUA------UGCUUCCACUUUUUU---AAUAACGCUUAAAUGU
.....((((.((.(((((((((....)-)))))))).)).)))).........(((....))).......((((((....------)))))).........---................ ( -28.10)
>Bhalo.0 2856794 117 - 4202352/0-120
AAAAAACUCCCACCCCUGAUGUAUUAUCCAUCAGGGACGAGAGUUG-AUUCCCGUGGUGCCACCCUAAUUGAAGCAUGAUAUGACAUGCUUCCACUCAAAUGCAGAUAACGCC--UGCCU
....(((((.(..((((((((.......))))))))..).))))).-......(((....))).......((((((((......)))))))).........((((.......)--))).. ( -35.50)
>Bclau.0 2605348 107 - 4303871/0-120
AAAAAACUCCCGUCCCAGAUGAUCGGAUCAUCUGGGACGGGAGCAU-AU-CCCGUGGUACCACCCAAAUUGAGGCAUAAA-------GCCCCCACUUUUGU-CUGUUAACGCC--AGC-U
......(((((((((((((((((...)))))))))))))))))...-..-...(((.((.((..((((.((.(((.....-------)))..))..)))).-.)).)).))).--...-. ( -42.40)
>consensus
AAAAAACUCCCGCCCCUAAUGUUUGAA_CAGCAGGGACGAGAGUAU_AUACCCGUGGUGCCACCCUAAUUGAAGCACGAA______UGCUUCCACUUUUUU___AAUAACGCC__AACGU
.....((((.((.((((((((.......)))))))).)).)))).........(((....))).......((((((..........))))))............................ (-25.20 = -24.20 +  -1.00)

alignment

secondary structure

dotplot

Window 0

Location	4,210,680 – 4,210,790
Length	110
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	73.02
Mean single sequence MFE	-41.84
Consensus MFE	-36.14
Energy contribution	-34.20
Covariance contribution	-1.94
Combinations/Pair	1.33
Mean z-score	-3.87
Structure conservation index	0.86
SVM decision value	5.02
SVM RNA-class probability	0.999969
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4210680 110 + 5227293/0-120
ACAUUUAAGCGUUAUU---AAAAAAGUGGAAGCA------UACGUGCUUCAAUUAGGGUGGCACCACGGGUAUAAUACUCUCGUCCCUACUG-UUCAAACAGUAGAGGCGGGAGUUUUUU
.(((((..........---....)))))((((((------....)))))).......(((....))).........(((((((((.((((((-(....))))))).)))))))))..... ( -34.24)
>Bcere.0 4157872 110 + 5224283/0-120
ACAUUUAAGCGUUAUU---AAAAAAGUGGAAGCA------UACGUGCUUCAAUUAGGGUGGCACCACGGGUAUAAUACUCUCGUCCCUACUG-UUCAAACAGUAGAGGCGGGAGUUUUUU
.(((((..........---....)))))((((((------....)))))).......(((....))).........(((((((((.((((((-(....))))))).)))))))))..... ( -34.24)
>Bhalo.0 2856794 117 - 4202352/0-120
AGGCA--GGCGUUAUCUGCAUUUGAGUGGAAGCAUGUCAUAUCAUGCUUCAAUUAGGGUGGCACCACGGGAAU-CAACUCUCGUCCCUGAUGGAUAAUACAUCAGGGGUGGGAGUUUUUU
.....--((.(((((((.(((....)))((((((((......)))))))).....))))))).))........-.(((((((..((((((((.......))))))))..))))))).... ( -48.80)
>Bclau.0 2605348 107 - 4303871/0-120
A-GCU--GGCGUUAACAG-ACAAAAGUGGGGGC-------UUUAUGCCUCAAUUUGGGUGGUACCACGGG-AU-AUGCUCCCGUCCCAGAUGAUCCGAUCAUCUGGGACGGGAGUUUUUU
.-.((--(..((...((.-.((((....(((((-------.....)))))..))))..))..))..))).-..-..((((((((((((((((((...))))))))))))))))))..... ( -50.10)
>consensus
ACACU__AGCGUUAUC___AAAAAAGUGGAAGCA______UACAUGCUUCAAUUAGGGUGGCACCACGGGUAU_AUACUCUCGUCCCUAAUG_UUCAAACAGCAGAGGCGGGAGUUUUUU
.........(((................((((((..........)))))).....((......)))))........((((((((((((((((.......))))))))))))))))..... (-36.14 = -34.20 +  -1.94)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:14:56 2006