Locus 6

Sequence ID sp_mu.0
Location 1,975,645 – 1,975,729
Length 84
Max. P 0.996610
window64 window65

overview

Window 4

Location 1,975,645 – 1,975,729
Length 84
Sequences 3
Columns 89
Reading direction forward
Mean pairwise identity 71.32
Mean single sequence MFE -15.13
Consensus MFE -9.27
Energy contribution -10.17
Covariance contribution 0.89
Combinations/Pair 1.20
Mean z-score -2.08
Structure conservation index 0.61
SVM decision value 2.72
SVM RNA-class probability 0.996610
Prediction RNA
WARNING Sequence 3: Base composition out of range.

Download alignment: ClustalW | MAF

>sp_mu.0 1975645 84 + 2030921
AUCUGUCAAGUAACUUUACUUUACAAGAAUCUUUUGAUAUACUAUUAAAGUUGACGCAAGUCA-----UAUUAACCCAAAAAAUGAAUA
.(((((.(((((....))))).)).)))...((((((((...)))))))).((((....))))-----..................... ( -12.80)
>sp_ag.0 2090743 89 + 2160267
UUUUGUCAAGUAACUUUACUUUACAAAAAAGAUAUGUUAUCAUAGUGAAGUUGAUGAAAAUCAAAACUUACACAUCGAAAGGAAGAAUA
((((((.(((((....))))).))))))....((((....))))(((((((((((....))))..)))).))).((....))....... ( -18.60)
>sp_pn.0 1924851 86 + 2038615
UUUUGUCAAGUAACUUUACUUUACAAAAAAAAUGUGUUAUCCUAGUAUGGUUGAUGAAAAUCAGUA--GAUUGAAUCGAAU-AUAAAUA
((((((.(((((....))))).)))))).................((((.(((((...((((....--))))..))))).)-))).... ( -14.00)
>consensus
UUUUGUCAAGUAACUUUACUUUACAAAAAAAAUAUGUUAUCCUAGUAAAGUUGAUGAAAAUCA__A__UAUUAAACCAAAA_AUGAAUA
.(((((.(((((....))))).))))).......................(((((....)))))......................... ( -9.27 = -10.17 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 1,975,645 – 1,975,729
Length 84
Sequences 2
Columns 89
Reading direction forward
Mean pairwise identity 68.54
Mean single sequence MFE -15.70
Consensus MFE -9.45
Energy contribution -9.95
Covariance contribution 0.50
Combinations/Pair 1.14
Mean z-score -2.55
Structure conservation index 0.60
SVM decision value 2.04
SVM RNA-class probability 0.986490
Prediction RNA

Download alignment: ClustalW | MAF

>sp_mu.0 1975645 84 + 2030921/0-89
AUCUGUCAAGUAACUUUACUUUACAAGAAUCUUUUGAUAUACUAUUAAAGUUGACGCAAGUCA-----UAUUAACCCAAAAAAUGAAUA
.(((((.(((((....))))).)).)))...((((((((...)))))))).((((....))))-----..................... ( -12.80)
>sp_ag.0 2090743 89 + 2160267/0-89
UUUUGUCAAGUAACUUUACUUUACAAAAAAGAUAUGUUAUCAUAGUGAAGUUGAUGAAAAUCAAAACUUACACAUCGAAAGGAAGAAUA
((((((.(((((....))))).))))))....((((....))))(((((((((((....))))..)))).))).((....))....... ( -18.60)
>consensus
AUCUGUCAAGUAACUUUACUUUACAAAAAACAUAUGAUAUAAUAGUAAAGUUGACGAAAAUCA_____UACAAACCCAAAAAAAGAAUA
.(((((.(((((....))))).)))))........................((((....)))).......................... ( -9.45 =  -9.95 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:51:17 2006