Locus 203

Sequence ID	pao.2781
Location	5,272,349 – 5,272,454
Length	105
Max. P	0.998600

overview

Window 6

Location	5,272,349 – 5,272,454
Length	105
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	67.91
Mean single sequence MFE	-34.12
Consensus MFE	-17.30
Energy contribution	-18.67
Covariance contribution	1.37
Combinations/Pair	1.41
Mean z-score	-1.99
Structure conservation index	0.51
SVM decision value	1.59
SVM RNA-class probability	0.965812
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.2781 5272349 105 + 6264404
UGACUAGGAAGACAACUCCGCCGGC------CCAGGCUUUAUACCAGAUCGCCAGGCAA--GAACGAAAAAACGCGGCCGG--GGCCGCGUUUCUUCGUCUGUCGCCGGAGCCGC
......(((.......)))..((((------((.(((.............))).(((.(--((.((((.(((((((((...--.))))))))).)))))))...))))).)))). ( -44.82)
>pfo.2842 5401422 91 + 6438405
UGUCUGGGACGACGGUUC-GGCCACAAACGAUGCAGCUUUAUACCAGAACC--GCACGCCCAUACGAAAAAACGCGGCCGA--GGCCGCGUUUUUU-------------------
.((.((((.((.((((((-(((..((.....))..)))........)))))--)..)))))).)).((((((((((((...--.))))))))))))------------------- ( -36.90)
>pf5.3191 6017270 92 + 7074893
UACCCAGGGCCGCGAUUC-GGCCACAAAGGAUCCAGCUUUAUACCAGAACCU-AUCCAUGCAAACGAAAAAACGCGGCCUA--GGCCGCGUUUUCC-------------------
.......(((((.....)-)))).....((((..((.(((......))).))-))))...........((((((((((...--.))))))))))..------------------- ( -29.20)
>pst.579 5328147 91 - 6397126
GGCCUGCCGCGAGGGUUC-GCCGGCAAACGAUGCAGCUUUAUACCAGAGCCUGACCCAU---AACGAAAAAACGCGACCGAUUGGCCGCGUUUU-U-------------------
((..(((((((......)-).))))).......(((((((.....)))).)))..))..---.....(((((((((.((....)).))))))))-)------------------- ( -27.40)
>psp.507 4883150 91 - 5928787
GGUCUGCCGCGAGGGUUC-GGCGGCAAACGAUGCAGCUUUAUACCAGAGCCUGACCCAU---AACGAAAAAACGCGACCGAUUGGCCGCGUUUUU--------------------
(((((((((((......)-.)))))).........(((((.....)))))..))))...---.....(((((((((.((....)).)))))))))-------------------- ( -30.90)
>pss.494 5132112 91 - 6093698
GGUCUGCGGCGACGGUUC-GCCAGCAAACGAUGCAGCUUUAUACCAGAGCCUGACCCAG---AACGAAAAAGCGCGACCGAUGGGUCGCGCCUUU--------------------
((((((((((((....))-))).))).........(((((.....)))))..))))...---.........((((((((....))))))))....-------------------- ( -35.50)
>consensus
GGUCUGCGGCGACGGUUC_GCCGGCAAACGAUGCAGCUUUAUACCAGAGCCUGACCCAU___AACGAAAAAACGCGACCGA__GGCCGCGUUUUUU___________________
...(((((.((...(((.....)))...)).)))))...............................((((((((((((....)))))))))))).................... (-17.30 = -18.67 +   1.37)

alignment

secondary structure

dotplot

Window 7

Location	5,272,349 – 5,272,454
Length	105
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	67.91
Mean single sequence MFE	-41.35
Consensus MFE	-20.28
Energy contribution	-19.90
Covariance contribution	-0.38
Combinations/Pair	1.58
Mean z-score	-3.14
Structure conservation index	0.49
SVM decision value	3.16
SVM RNA-class probability	0.998600
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.2781 5272349 105 - 6264404
GCGGCUCCGGCGACAGACGAAGAAACGCGGCC--CCGGCCGCGUUUUUUCGUUC--UUGCCUGGCGAUCUGGUAUAAAGCCUGG------GCCGGCGGAGUUGUCUUCCUAGUCA
(((((((((.((...((((((((((((((((.--...)))))))))))))))).--..(((((((.............))).))------)))).)))))))))........... ( -54.52)
>pfo.2842 5401422 91 - 6438405
-------------------AAAAAACGCGGCC--UCGGCCGCGUUUUUUCGUAUGGGCGUGC--GGUUCUGGUAUAAAGCUGCAUCGUUUGUGGCC-GAACCGUCGUCCCAGACA
-------------------((((((((((((.--...)))))))))))).((.((((((.((--(((((.(((...((((......))))...)))-))))))))).)))).)). ( -46.30)
>pf5.3191 6017270 92 - 7074893
-------------------GGAAAACGCGGCC--UAGGCCGCGUUUUUUCGUUUGCAUGGAU-AGGUUCUGGUAUAAAGCUGGAUCCUUUGUGGCC-GAAUCGCGGCCCUGGGUA
-------------------..........(((--(((((((((....((((.(..((.....-(((.((..((.....))..)).))).))..).)-))).))))).))))))). ( -38.40)
>pst.579 5328147 91 + 6397126
-------------------A-AAAACGCGGCCAAUCGGUCGCGUUUUUUCGUU---AUGGGUCAGGCUCUGGUAUAAAGCUGCAUCGUUUGCCGGC-GAACCCUCGCGGCAGGCC
-------------------(-(((((((((((....)))))))))))).....---...(((..((((.........))))..)))((((((((.(-((....))))))))))). ( -35.30)
>psp.507 4883150 91 + 5928787
--------------------AAAAACGCGGCCAAUCGGUCGCGUUUUUUCGUU---AUGGGUCAGGCUCUGGUAUAAAGCUGCAUCGUUUGCCGCC-GAACCCUCGCGGCAGACC
--------------------((((((((((((....)))))))))))).....---...(((..((((.........))))..)))(((((((((.-((....))))))))))). ( -35.80)
>pss.494 5132112 91 + 6093698
--------------------AAAGGCGCGACCCAUCGGUCGCGCUUUUUCGUU---CUGGGUCAGGCUCUGGUAUAAAGCUGCAUCGUUUGCUGGC-GAACCGUCGCCGCAGACC
--------------------((((((((((((....)))))))))))).....---...((((.(((..((((.....((((((.....))).)))-..))))..)))...)))) ( -37.80)
>consensus
___________________AAAAAACGCGGCC__UCGGCCGCGUUUUUUCGUU___AUGGGUCAGGCUCUGGUAUAAAGCUGCAUCGUUUGCCGCC_GAACCGUCGCCCCAGACA
...................(((((((((((((....))))))))))))).....................(((.....))).....(((((.(((..........))).))))). (-20.28 = -19.90 +  -0.38)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:17:39 2007