Locus 40

Sequence ID	pao.2677
Location	5,068,929 – 5,069,029
Length	100
Max. P	0.980402

overview

Window 7

Location	5,068,929 – 5,069,029
Length	100
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	72.03
Mean single sequence MFE	-29.75
Consensus MFE	-27.77
Energy contribution	-25.33
Covariance contribution	-2.44
Combinations/Pair	1.33
Mean z-score	-1.50
Structure conservation index	0.93
SVM decision value	1.82
SVM RNA-class probability	0.978634
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.2677 5068929 100 + 6264404
GACUGGUGCCGGAUAGAGGAAUCGAACCCCCGACCUUCUCAUUACGAAUGAGCUGCUCUACCGACUGAGCUAAUCCGGCGGCGCGGGGGAGCCUACCAUU
...(((((((((((.(((((.(((......)))..)))))..............((((........))))..)))))))(((........))).)))).. ( -34.30)
>pau.2763 5232633 97 + 6537648
GACUGGUGCCGGAUAGAGGAAUCGAACCCCCGACCUUCUCAUUACGAAUGAGCUGCUCUACCGACUGAGCUAAUCCGGCGGCGGCGAGCAAACUACC---
(.(((.((((((((.(((((.(((......)))..)))))..............((((........))))..)))))))).))))............--- ( -31.40)
>pf5.1056 5107386 79 - 7074893
AUUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGC---------------------
.......(((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))--------------------- ( -28.20)
>pfo.2462 4729159 79 + 6438405
AUUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGC---------------------
.......(((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))--------------------- ( -28.20)
>ppk.1076 4078662 79 - 6181863
AUUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGC---------------------
.......(((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))--------------------- ( -28.20)
>pel.884 4227917 79 - 5888780
AUUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGC---------------------
.......(((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))--------------------- ( -28.20)
>consensus
AUUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGC_____________________
.......(((((((.((((.......))))......((((((.....)))))).((((........))))..)))))))..................... (-27.77 = -25.33 +  -2.44)

alignment

secondary structure

dotplot

Window 8

Location	5,068,929 – 5,069,029
Length	100
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	72.03
Mean single sequence MFE	-33.73
Consensus MFE	-32.59
Energy contribution	-29.60
Covariance contribution	-2.99
Combinations/Pair	1.36
Mean z-score	-1.81
Structure conservation index	0.97
SVM decision value	1.86
SVM RNA-class probability	0.980402
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.2677 5068929 100 - 6264404
AAUGGUAGGCUCCCCCGCGCCGCCGGAUUAGCUCAGUCGGUAGAGCAGCUCAUUCGUAAUGAGAAGGUCGGGGGUUCGAUUCCUCUAUCCGGCACCAGUC
..((((.(((........)))(((((((..((((........))))..(((((.....)))))......(((((......))))).)))))))))))... ( -36.20)
>pau.2763 5232633 97 - 6537648
---GGUAGUUUGCUCGCCGCCGCCGGAUUAGCUCAGUCGGUAGAGCAGCUCAUUCGUAAUGAGAAGGUCGGGGGUUCGAUUCCUCUAUCCGGCACCAGUC
---((..((......))..))(((((((..((((........))))..(((((.....)))))......(((((......))))).)))))))....... ( -31.80)
>pf5.1056 5107386 79 + 7074893
---------------------GCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAAU
---------------------(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))....... ( -33.60)
>pfo.2462 4729159 79 - 6438405
---------------------GCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAAU
---------------------(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))....... ( -33.60)
>ppk.1076 4078662 79 + 6181863
---------------------GCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAAU
---------------------(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))....... ( -33.60)
>pel.884 4227917 79 + 5888780
---------------------GCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAAU
---------------------(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))....... ( -33.60)
>consensus
_____________________GCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAAU
.....................(((((((..((((........)))).((((((.....)))))).....(((((.......))))))))))))....... (-32.59 = -29.60 +  -2.99)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:06:48 2007