Locus 99

Sequence ID	pao_1
Location	5,798,537 – 5,798,637
Length	100
Max. P	0.992664

overview

Window 9

Location	5,798,537 – 5,798,637
Length	100
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	82.86
Mean single sequence MFE	-36.90
Consensus MFE	-36.59
Energy contribution	-35.70
Covariance contribution	-0.89
Combinations/Pair	1.09
Mean z-score	-2.46
Structure conservation index	0.99
SVM decision value	2.34
SVM RNA-class probability	0.992664
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5798537 100 + 1
AAACCCGUUUAAUUGCGCCCCGUUGCCCAGGUAGCUCAGUUGGUAGAGCAGGGGAUUGAAAAUCCCCGUGUCGGCGGUUCGAUUCCGUCCCUGGGCACCA
.....(((......)))....(.((((((((..((((........)))).((((((.....)))))).....(((((.......))))))))))))).). ( -39.50)
>pau_1 1 100 + 1
AAACCCGUUUAAUUGCGCCCCGUUGCCCAGGUAGCUCAGUUGGUAGAGCAGGGGAUUGAAAAUCCCCGUGUCGGCGGUUCGAUUCCGUCCCUGGGCACCA
.....(((......)))....(.((((((((..((((........)))).((((((.....)))))).....(((((.......))))))))))))).). ( -39.50)
>pel_1 1 76 + 1
------------------------GCCCAGAUAGCUCAGUCGGUAGAGCAGAGGAUUGAAAAUCCUCGUGUCGGCGGUUCGACUCCGUCUCUGGGCACCA
------------------------(((((((..((((........)))).((((((.....)))))).....(((((.......)))))))))))).... ( -33.90)
>ppk_1 1 76 + 1
------------------------GCCCAGAUAGCUCAGUCGGUAGAGCAGAGGAUUGAAAAUCCUCGUGUCGGCGGUUCGACUCCGUCUCUGGGCACCA
------------------------(((((((..((((........)))).((((((.....)))))).....(((((.......)))))))))))).... ( -33.90)
>psp_1 1 87 + 1
------------U-GCGCCCCGUUGCCCAGAUAGCUCAGUCGGUAGAGCAGGGGAUUGAAAAUCCCCGUGUCGGCGGUUCGAUUCCGUCUCUGGGCACCA
------------.-.......(.((((((((..((((........)))).((((((.....)))))).....(((((.......))))))))))))).). ( -37.30)
>pss_1 1 87 + 1
-------------UGCGCCCCGUUGCCCAGAUAGCUCAGUCGGUAGAGCAGGGGAUUGAAAAUCCCCGUGUCGGCGGUUCGAUUCCGUCUCUGGGCACCA
-------------........(.((((((((..((((........)))).((((((.....)))))).....(((((.......))))))))))))).). ( -37.30)
>consensus
______________GCGCCCCGUUGCCCAGAUAGCUCAGUCGGUAGAGCAGGGGAUUGAAAAUCCCCGUGUCGGCGGUUCGAUUCCGUCUCUGGGCACCA
........................(((((((..((((........)))).((((((.....)))))).....(((((.......)))))))))))).... (-36.59 = -35.70 +  -0.89)

alignment

secondary structure

dotplot

Window 0

Location	5,798,537 – 5,798,637
Length	100
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	82.86
Mean single sequence MFE	-33.87
Consensus MFE	-31.75
Energy contribution	-31.20
Covariance contribution	-0.55
Combinations/Pair	1.09
Mean z-score	-1.94
Structure conservation index	0.94
SVM decision value	1.29
SVM RNA-class probability	0.940290
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5798537 100 - 1
UGGUGCCCAGGGACGGAAUCGAACCGCCGACACGGGGAUUUUCAAUCCCCUGCUCUACCAACUGAGCUACCUGGGCAACGGGGCGCAAUUAAACGGGUUU
..((((((.((..((....))..))(((.....((((((.....)))))).((((........))))......)))....)))))).............. ( -37.30)
>pau_1 1 100 - 1
UGGUGCCCAGGGACGGAAUCGAACCGCCGACACGGGGAUUUUCAAUCCCCUGCUCUACCAACUGAGCUACCUGGGCAACGGGGCGCAAUUAAACGGGUUU
..((((((.((..((....))..))(((.....((((((.....)))))).((((........))))......)))....)))))).............. ( -37.30)
>pel_1 1 76 - 1
UGGUGCCCAGAGACGGAGUCGAACCGCCGACACGAGGAUUUUCAAUCCUCUGCUCUACCGACUGAGCUAUCUGGGC------------------------
....(((((((......((((......))))..((((((.....)))))).((((........))))..)))))))------------------------ ( -30.20)
>ppk_1 1 76 - 1
UGGUGCCCAGAGACGGAGUCGAACCGCCGACACGAGGAUUUUCAAUCCUCUGCUCUACCGACUGAGCUAUCUGGGC------------------------
....(((((((......((((......))))..((((((.....)))))).((((........))))..)))))))------------------------ ( -30.20)
>psp_1 1 87 - 1
UGGUGCCCAGAGACGGAAUCGAACCGCCGACACGGGGAUUUUCAAUCCCCUGCUCUACCGACUGAGCUAUCUGGGCAACGGGGCGC-A------------
..((((((......((.......))(((.....((((((.....)))))).((((........))))......)))....))))))-.------------ ( -34.10)
>pss_1 1 87 - 1
UGGUGCCCAGAGACGGAAUCGAACCGCCGACACGGGGAUUUUCAAUCCCCUGCUCUACCGACUGAGCUAUCUGGGCAACGGGGCGCA-------------
..((((((......((.......))(((.....((((((.....)))))).((((........))))......)))....)))))).------------- ( -34.10)
>consensus
UGGUGCCCAGAGACGGAAUCGAACCGCCGACACGGGGAUUUUCAAUCCCCUGCUCUACCGACUGAGCUAUCUGGGCAACGGGGCGC______________
...(((((((((.(((.......))).).....((((((.....)))))).((((........))))..))))))))....................... (-31.75 = -31.20 +  -0.55)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:53:39 2007