Locus 141

Sequence ID	pao.1086
Location	1,953,980 – 1,954,068
Length	88
Max. P	0.936010

overview

Window 0

Location	1,953,980 – 1,954,068
Length	88
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	80.86
Mean single sequence MFE	-31.13
Consensus MFE	-23.55
Energy contribution	-23.56
Covariance contribution	0.00
Combinations/Pair	1.21
Mean z-score	-2.54
Structure conservation index	0.76
SVM decision value	1.25
SVM RNA-class probability	0.936010
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.1086 1953980 88 + 6264404
UC--CUCUCGUUCGAA----UC-CCACAAGCCAGCCUUAGUGCUGGCUUGUGCGUCUUUGAGGCUUCACUAUCUGUUAGGGAGUGAUCGCAAGAC
..--......((((((----..-((((((((((((......))))))))))).)..))))))(((((.(((.....))))))))..((....)). ( -33.80)
>pss.1034 1984695 85 + 6093698
UC--UUUUCGUGCGAAA-ACAC-CCACAAGCCAGCCUUCGCGCUGGCUUGUGCGUAUUCAAGACUCGACUAUUUG----GGAGUGAAUGCAGG--
..--(((((....))))-)..(-((((((((((((......))))))))))).(((((((...(((((....)))----))..))))))).))-- ( -32.70)
>pf5.2420 2468411 86 - 7074893
UC--UUCUCGUUCGAAGCACACACCAUAAGCCAGCCUUCGCGCUGGCUUAUGCGUAUUCAAGACGUGACUAUUUG----GGAGUGACUGCAG---
..--............((((((.((((((((((((......))))))))))((((.......)))).........----)).)))..)))..--- ( -26.30)
>psp.1008 1962117 85 + 5928787
UC--UUUUCGUGCGAAA-ACAC-CCACAAGCCAGCCUUCGCGCUGGCUUGUGCGUAUUCAAGACUCGACUAUUUG----GGAGUGAAUGCAGG--
..--(((((....))))-)..(-((((((((((((......))))))))))).(((((((...(((((....)))----))..))))))).))-- ( -32.70)
>ppk.1334 2628248 85 + 6181863
-CUUCUCUCGUAGGAA--ACCU-CCACAAGCCAGCCUUCGAGCUGGCUUGUGCGUAUUCAAGCCAUGACUAUUUG----GGAGUGAGCGCAGG--
-...........(((.--...)-))((((((((((......))))))))))((((..(((..(((........))----)...)))))))...-- ( -29.90)
>pel.1048 1956569 83 + 5888780
-CUUCUCUCGUAGGAA----CC-CCACAAGCCAGCCUUCGCGCUGGCUUGUGCGUAUUCAAGCCAUGACUAUUUG----GGAGUGAGUGCAGG--
-.((((......))))----((-.(((((((((((......))))))))))).(((((((..(((........))----)...))))))).))-- ( -31.40)
>consensus
UC__CUCUCGUACGAA__ACAC_CCACAAGCCAGCCUUCGCGCUGGCUUGUGCGUAUUCAAGACUUGACUAUUUG____GGAGUGAAUGCAGG__
........................(((((((((((......))))))))))).(((((((........(.....)........)))))))..... (-23.55 = -23.56 +   0.00)

alignment

secondary structure

dotplot

Window 1

Location	1,953,980 – 1,954,068
Length	88
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	80.86
Mean single sequence MFE	-30.60
Consensus MFE	-21.36
Energy contribution	-21.08
Covariance contribution	-0.28
Combinations/Pair	1.09
Mean z-score	-2.49
Structure conservation index	0.70
SVM decision value	1.12
SVM RNA-class probability	0.918130
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.1086 1953980 88 - 6264404
GUCUUGCGAUCACUCCCUAACAGAUAGUGAAGCCUCAAAGACGCACAAGCCAGCACUAAGGCUGGCUUGUGG-GA----UUCGAACGAGAG--GA
.........(((((..(.....)..)))))..((((.....(.(((((((((((......))))))))))).-).----.((....)))))--). ( -32.70)
>pss.1034 1984695 85 - 6093698
--CCUGCAUUCACUCC----CAAAUAGUCGAGUCUUGAAUACGCACAAGCCAGCGCGAAGGCUGGCUUGUGG-GUGU-UUUCGCACGAAAA--GA
--..............----.......(((.((...((((((.(((((((((((......))))))))))).-))))-))..)).)))...--.. ( -32.80)
>pf5.2420 2468411 86 + 7074893
---CUGCAGUCACUCC----CAAAUAGUCACGUCUUGAAUACGCAUAAGCCAGCGCGAAGGCUGGCUUAUGGUGUGUGCUUCGAACGAGAA--GA
---.............----.......((.(((.((((((((((((((((((((......)))))))))).))))))...))))))).)).--.. ( -27.80)
>psp.1008 1962117 85 - 5928787
--CCUGCAUUCACUCC----CAAAUAGUCGAGUCUUGAAUACGCACAAGCCAGCGCGAAGGCUGGCUUGUGG-GUGU-UUUCGCACGAAAA--GA
--..............----.......(((.((...((((((.(((((((((((......))))))))))).-))))-))..)).)))...--.. ( -32.80)
>ppk.1334 2628248 85 - 6181863
--CCUGCGCUCACUCC----CAAAUAGUCAUGGCUUGAAUACGCACAAGCCAGCUCGAAGGCUGGCUUGUGG-AGGU--UUCCUACGAGAGAAG-
--.((...(((.((((----............((........))(((((((((((....)))))))))))))-))((--.....)))))...))- ( -28.40)
>pel.1048 1956569 83 - 5888780
--CCUGCACUCACUCC----CAAAUAGUCAUGGCUUGAAUACGCACAAGCCAGCGCGAAGGCUGGCUUGUGG-GG----UUCCUACGAGAGAAG-
--......(((....(----((........)))...((((.(.(((((((((((......))))))))))).-))----)))....))).....- ( -29.10)
>consensus
__CCUGCACUCACUCC____CAAAUAGUCAAGUCUUGAAUACGCACAAGCCAGCGCGAAGGCUGGCUUGUGG_GUGU__UUCGAACGAGAA__GA
...........................................(((((((((((......)))))))))))........................ (-21.36 = -21.08 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:14:39 2007