Locus 96

Sequence ID	pao_1
Location	5,537,740 – 5,537,794
Length	54
Max. P	0.999996

overview

Window 3

Location	5,537,740 – 5,537,794
Length	54
Sequences	6
Columns	57
Reading direction	forward
Mean pairwise identity	91.43
Mean single sequence MFE	-19.55
Consensus MFE	-17.23
Energy contribution	-17.23
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.11
Structure conservation index	0.88
SVM decision value	1.58
SVM RNA-class probability	0.965585
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5537740 54 + 1
AAUGCUCCUUACGGGUUGCAGCCUGCCGCA---GAACGGUCAGGCAAGGAGUGAAUG
...(((((((..(.....).((((((((..---...))).))))))))))))..... ( -21.00)
>pau_1 1 54 + 1
AAUGCUCCUUACGGGUUGCAGCCUGCCGCA---GAACGGUCAGGCAAGGAGUGAAUG
...(((((((..(.....).((((((((..---...))).))))))))))))..... ( -21.00)
>pf5_1 1 57 + 1
AAUGCUCCUUACGGGUUGUAGCCUGCCGCCUAUAAGCGGUCAGACAAGGAGUGAAUG
...(((((((.(((((....)))))((((......))))......)))))))..... ( -20.30)
>pfo_1 1 57 + 1
AAUGCUCCUUACGGGUUGUAGCCUGCCGCUCAAAAACGGUCAGACAAGGAGUGAAUG
...(((((((.(((((....)))))(((........)))......)))))))..... ( -16.80)
>pfs_1 1 57 + 1
AAUGCUCCUUACGGGUUGUAGCCUGCCGCUCAAAAACGGUCAGACAAGGAGUGAAUG
...(((((((.(((((....)))))(((........)))......)))))))..... ( -16.80)
>psp_1 1 57 + 1
AAUGCUCCUUACGGGUUGUAGCCUGCCGCUCAAAAGCGGUCAGACAAGGAGUGAAUG
...(((((((.(((((....)))))(((((....)))))......)))))))..... ( -21.40)
>consensus
AAUGCUCCUUACGGGUUGUAGCCUGCCGCUCAAAAACGGUCAGACAAGGAGUGAAUG
...(((((((.(((((....)))))(((........)))......)))))))..... (-17.23 = -17.23 +  -0.00)

alignment

secondary structure

dotplot

Window 4

Location	5,537,740 – 5,537,794
Length	54
Sequences	6
Columns	57
Reading direction	reverse
Mean pairwise identity	91.43
Mean single sequence MFE	-20.05
Consensus MFE	-20.82
Energy contribution	-20.15
Covariance contribution	-0.67
Combinations/Pair	1.18
Mean z-score	-3.03
Structure conservation index	1.04
SVM decision value	5.97
SVM RNA-class probability	0.999996
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5537740 54 - 1
CAUUCACUCCUUGCCUGACCGUUC---UGCGGCAGGCUGCAACCCGUAAGGAGCAUU
......(((((((((((.(((...---..)))))))).((.....)))))))).... ( -20.30)
>pau_1 1 54 - 1
CAUUCACUCCUUGCCUGACCGUUC---UGCGGCAGGCUGCAACCCGUAAGGAGCAUU
......(((((((((((.(((...---..)))))))).((.....)))))))).... ( -20.30)
>pf5_1 1 57 - 1
CAUUCACUCCUUGUCUGACCGCUUAUAGGCGGCAGGCUACAACCCGUAAGGAGCAUU
......(((((((((((.(((((....)))))))))).((.....)))))))).... ( -21.20)
>pfo_1 1 57 - 1
CAUUCACUCCUUGUCUGACCGUUUUUGAGCGGCAGGCUACAACCCGUAAGGAGCAUU
......(((((((((((.(((((....)))))))))).((.....)))))))).... ( -18.70)
>pfs_1 1 57 - 1
CAUUCACUCCUUGUCUGACCGUUUUUGAGCGGCAGGCUACAACCCGUAAGGAGCAUU
......(((((((((((.(((((....)))))))))).((.....)))))))).... ( -18.70)
>psp_1 1 57 - 1
CAUUCACUCCUUGUCUGACCGCUUUUGAGCGGCAGGCUACAACCCGUAAGGAGCAUU
......(((((((((((.(((((....)))))))))).((.....)))))))).... ( -21.10)
>consensus
CAUUCACUCCUUGUCUGACCGUUUUUGAGCGGCAGGCUACAACCCGUAAGGAGCAUU
......(((((((((((.((((......))))))))).((.....)))))))).... (-20.82 = -20.15 +  -0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:53:31 2007