Locus 33

Sequence ID	pao_1
Location	2,923,218 – 2,923,326
Length	108
Max. P	0.864507

overview

Window 9

Location	2,923,218 – 2,923,326
Length	108
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	83.10
Mean single sequence MFE	-33.15
Consensus MFE	-29.90
Energy contribution	-29.90
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.39
Structure conservation index	0.90
SVM decision value	0.22
SVM RNA-class probability	0.639618
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 2923218 108 + 1
AUAUUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCAUCGUCUUGGUGACGGGCGCCAUUCUA
.....(((.(((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))..(((((.(....)))))))))..... ( -38.70)
>pst_1 1 108 + 1
AUAUCUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCAUUGUCUUGAUGAUGGGCACUAUUCUA
.....(((((((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))..(((((.......)))))....)))) ( -34.20)
>pel_1 1 84 + 1
--AUUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCGUCGU----------------------
--....(..(((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))..)..---------------------- ( -31.00)
>pf5_1 1 93 + 1
AUGUUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCAACGUCUUGGUG---------------
......(..(((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))..).........--------------- ( -30.00)
>pfs_1 1 81 + 1
--AUUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCAU-------------------------
--.......(((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))..------------------------- ( -29.90)
>pss_1 1 105 + 1
---UUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCAUUGUCUUGAUGACGGGCGCUAUUCUA
---..(((((((((...((((.......))))...)))((((((.....)))))).)))))).......(((....((((((((.....)))).)))).)))...... ( -35.10)
>consensus
__AUUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCAUCGUCUUG_UG_______________
.........(((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))........................... (-29.90 = -29.90 +   0.00)

alignment

secondary structure

dotplot

Window 0

Location	2,923,218 – 2,923,326
Length	108
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	83.10
Mean single sequence MFE	-35.53
Consensus MFE	-33.65
Energy contribution	-33.65
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.62
Structure conservation index	0.95
SVM decision value	0.84
SVM RNA-class probability	0.864507
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 2923218 108 - 1
UAGAAUGGCGCCCGUCACCAAGACGAUGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAAUAU
.....(((....((((.....))))..(((((((..((((........))))..((((((((....).)))))))(((((.......)))))))))))).)))..... ( -39.80)
>pst_1 1 108 - 1
UAGAAUAGUGCCCAUCAUCAAGACAAUGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAGAUAU
...........................(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))......... ( -33.60)
>pel_1 1 84 - 1
----------------------ACGACGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAAU--
----------------------..((.(((((((..((((........))))..((((((((....).)))))))(((((.......)))))))))))))).....-- ( -34.20)
>pf5_1 1 93 - 1
---------------CACCAAGACGUUGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAACAU
---------------.........(..(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))..)...... ( -34.30)
>pfs_1 1 81 - 1
-------------------------AUGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAAU--
-------------------------..(((((((..((((........))))..((((((((....).)))))))(((((.......)))))))))))).......-- ( -33.60)
>pss_1 1 105 - 1
UAGAAUAGCGCCCGUCAUCAAGACAAUGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAA---
......(((.((((.(((.......)))))))....))).........((((.((((((.....))))))(((..(((((.......)))))..)))))))....--- ( -37.70)
>consensus
_______________CA_CAAGACGAUGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAAU__
...........................(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))......... (-33.65 = -33.65 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:47:39 2007