Locus 99

Sequence ID Bcere.0
Location 1,309,643 – 1,309,757
Length 114
Max. P 0.999938
window708 window709

overview

Window 8

Location 1,309,643 – 1,309,757
Length 114
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 75.18
Mean single sequence MFE -30.60
Consensus MFE -21.80
Energy contribution -20.43
Covariance contribution -1.37
Combinations/Pair 1.19
Mean z-score -3.18
Structure conservation index 0.71
SVM decision value 4.68
SVM RNA-class probability 0.999938
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 1309643 114 + 5224283/0-120
AAAAAGCCCAUUCAUCCCAAAAAACUAUAGGGACGAAUGGACCGCGGUACCACCCUAAUUAUUUCACU------ACUGUGAAAUCUCUCUAAUCCAUAAUAACGUUUGGAUAUAACGCCA
.....((((((((.((((...........)))).))))))...))(((............(((((((.------...))))))).......(((((..........))))).....))). ( -28.20)
>Banth.0 1152338 114 + 5227293/0-120
AAAAAGCCCAUUCAUCCCAAAAAACUAUAGGGACGAAUGGACCGCGGUACCACCCUAAUUAUUUCACU------ACUGUGAAAUCUCUCUAAUCCAUAGUAACGUUUGGAUAUAACGCCA
.....((((((((.((((...........)))).))))))...))(((............(((((((.------...))))))).......(((((..........))))).....))). ( -28.20)
>Blich.0 1242667 119 + 4222334/0-120
AAAAGGCCCAUUCUUCCCUUAAAAGAAAAGGGACGAAUGAACCGUGGUGCCACCCUGAUUAUUUCAUUAUGGUCAAAAUGAAAUCGCUUUAGACGUUUGUAACGGA-GUCUUCUCCGGCU
....((..(((((.((((((.......)))))).)))))..))(((((..((...(((((((......)))))))...))..)))))...............((((-(....)))))... ( -34.30)
>Bsubt.0 1218451 111 + 4214630/0-120
AAAAGGCUCAUUCUUCCCCUGUAA-AAAAGGGACGAAUGAACCGUGGUACCACCCUGAUUAUUCCAUU------AAAAUGGAAUCACUCU-GACGUUUGUAACGGA-GACUGCUCCGGCU
....((.((((((.((((.(....-..).)))).)))))).))(((....)))...((..(((((((.------...)))))))...)).-...........((((-(....)))))... ( -31.70)
>consensus
AAAAAGCCCAUUCAUCCCAAAAAACAAAAGGGACGAAUGAACCGCGGUACCACCCUAAUUAUUUCACU______AAAAUGAAAUCUCUCUAAACCAUAGUAACGGA_GGAUACAACGCCA
....((.((((((.((((...........)))).)))))).))(.((.....))).....(((((((..........)))))))..................((((.......))))... (-21.80 = -20.43 +  -1.37)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 1,309,643 – 1,309,757
Length 114
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 75.18
Mean single sequence MFE -39.32
Consensus MFE -35.62
Energy contribution -34.25
Covariance contribution -1.38
Combinations/Pair 1.30
Mean z-score -3.73
Structure conservation index 0.91
SVM decision value 4.55
SVM RNA-class probability 0.999918
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 1309643 114 + 5224283/0-120
UGGCGUUAUAUCCAAACGUUAUUAUGGAUUAGAGAGAUUUCACAGU------AGUGAAAUAAUUAGGGUGGUACCGCGGUCCAUUCGUCCCUAUAGUUUUUUGGGAUGAAUGGGCUUUUU
..(((.(((((((...(((....)))..........(((((((...------.))))))).....)))).))).)))((((((((((((((...........)))))))))))))).... ( -38.70)
>Banth.0 1152338 114 + 5227293/0-120
UGGCGUUAUAUCCAAACGUUACUAUGGAUUAGAGAGAUUUCACAGU------AGUGAAAUAAUUAGGGUGGUACCGCGGUCCAUUCGUCCCUAUAGUUUUUUGGGAUGAAUGGGCUUUUU
..(((.(((((((........(((.....)))....(((((((...------.))))))).....)))).))).)))((((((((((((((...........)))))))))))))).... ( -39.40)
>Blich.0 1242667 119 + 4222334/0-120
AGCCGGAGAAGAC-UCCGUUACAAACGUCUAAAGCGAUUUCAUUUUGACCAUAAUGAAAUAAUCAGGGUGGCACCACGGUUCAUUCGUCCCUUUUCUUUUAAGGGAAGAAUGGGCCUUUU
.(((((((....)-)))...((...(((.....)))((((((((........)))))))).......))))).....(((((((((.((((((.......)))))).))))))))).... ( -38.60)
>Bsubt.0 1218451 111 + 4214630/0-120
AGCCGGAGCAGUC-UCCGUUACAAACGUC-AGAGUGAUUCCAUUUU------AAUGGAAUAAUCAGGGUGGUACCACGGUUCAUUCGUCCCUUUU-UUACAGGGGAAGAAUGAGCCUUUU
..((((((....)-)))............-.((...(((((((...------.)))))))..)).))(((....)))(((((((((.((((((..-....)))))).))))))))).... ( -40.60)
>consensus
AGCCGGAAUAGCC_AACGUUACAAACGACUAGAGAGAUUUCACAGU______AAUGAAAUAAUCAGGGUGGUACCACGGUCCAUUCGUCCCUAUAGUUUUAUGGGAAGAAUGGGCCUUUU
.((((((.......))))))................((((((((........)))))))).......(((....)))((((((((((((((((.......)))))))))))))))).... (-35.62 = -34.25 +  -1.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:24:53 2006