Locus 56

Sequence ID	pao_1
Location	4,783,114 – 4,783,211
Length	97
Max. P	0.825651

overview

Window 9

Location	4,783,114 – 4,783,211
Length	97
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	82.31
Mean single sequence MFE	-32.08
Consensus MFE	-20.61
Energy contribution	-21.83
Covariance contribution	1.22
Combinations/Pair	1.06
Mean z-score	-1.82
Structure conservation index	0.64
SVM decision value	0.10
SVM RNA-class probability	0.581757
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 4783114 97 + 1
GCUACUCCAAAUUCGGGUACAAGCGCC--UGAAGGCUCCCCGGUU-GCUUUCGCGUUUAUCCCAGUGACGACAAAACCCCGCAGCCUUGGGCUGCGGGGU
..............(((...((((((.--.((((((.(....)..-))))))))))))..)))............(((((((((((...))))))))))) ( -41.70)
>pst_1 1 96 + 1
---ACUCCAAUUACGGGUUCAAGCGCCUAUAAAGGCUCCCCGGUU-ACGUACGCGUAUAUCCCAGUGACGAAAAAACCCCACAGCCUUAAGCUGCGGGGU
---.......(((((((.....(.((((....)))).))))((.(-(((....))))...))..)))).......(((((.((((.....)))).))))) ( -30.60)
>pau_1 1 97 + 1
GCUACUCCAAAUUCGGGUACAAGCGCC--UGAAGGCUCCCCGGUU-GCUUUCGCGUUUAUCCCAGUGACGACAAAACCCCGCAGCCUUGGGCUGCGGGGU
..............(((...((((((.--.((((((.(....)..-))))))))))))..)))............(((((((((((...))))))))))) ( -41.70)
>ppk_1 1 82 + 1
GCUACUCCAAAAUCGGGUACGAACGCC--UGAUGGCUCCCCGGAUGACUUGCGU-UUUAUCCCAGUGACGACAAAACCCCGCAGC---------------
((...(((...(((((((......)))--))))((....)))))....((((((-(..........)))).)))......))...--------------- ( -16.80)
>psp_1 1 96 + 1
---ACUCCAAUUACGGGUUCAAGCGCCAAUAAAGGCUCCCCGGUU-ACUUACGCGUAUAUCCCAGUGACGAAAAAACCCCACAGCCAUGGGCUGCGGGGU
---..........((((.....(.(((......))).)))))(((-(((..............))))))......(((((.(((((...))))).))))) ( -30.84)
>pss_1 1 96 + 1
---ACUCCAAUUACGGGUUCAAGCGCCAAUAAAGGCUCCCCGGUU-ACUUACGCGUAUAUCCCAGUGACGAAAAAACCCCACAGCCUUGGGCUGCGGGGU
---..........((((.....(.(((......))).)))))(((-(((..............))))))......(((((.(((((...))))).))))) ( -30.84)
>consensus
___ACUCCAAAUACGGGUACAAGCGCC__UAAAGGCUCCCCGGUU_ACUUACGCGUAUAUCCCAGUGACGAAAAAACCCCACAGCCUUGGGCUGCGGGGU
..............(((.....(((((......))).(....).........))......)))............(((((.((((.....)))).))))) (-20.61 = -21.83 +   1.22)

alignment

secondary structure

dotplot

Window 0

Location	4,783,114 – 4,783,211
Length	97
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	82.31
Mean single sequence MFE	-36.60
Consensus MFE	-29.57
Energy contribution	-30.37
Covariance contribution	0.79
Combinations/Pair	1.22
Mean z-score	-1.93
Structure conservation index	0.81
SVM decision value	0.70
SVM RNA-class probability	0.825651
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 4783114 97 - 1
ACCCCGCAGCCCAAGGCUGCGGGGUUUUGUCGUCACUGGGAUAAACGCGAAAGC-AACCGGGGAGCCUUCA--GGCGCUUGUACCCGAAUUUGGAGUAGC
(((((((((((...)))))))))))((((((........)))))).((....))-...((((..(((....--))).......))))............. ( -41.00)
>pst_1 1 96 - 1
ACCCCGCAGCUUAAGGCUGUGGGGUUUUUUCGUCACUGGGAUAUACGCGUACGU-AACCGGGGAGCCUUUAUAGGCGCUUGAACCCGUAAUUGGAGU---
((((((((((.....))))))))))..(((((....((((...((((....)))-)..((((..((((....)))).))))..))))....))))).--- ( -37.10)
>pau_1 1 97 - 1
ACCCCGCAGCCCAAGGCUGCGGGGUUUUGUCGUCACUGGGAUAAACGCGAAAGC-AACCGGGGAGCCUUCA--GGCGCUUGUACCCGAAUUUGGAGUAGC
(((((((((((...)))))))))))((((((........)))))).((....))-...((((..(((....--))).......))))............. ( -41.00)
>ppk_1 1 82 - 1
---------------GCUGCGGGGUUUUGUCGUCACUGGGAUAAA-ACGCAAGUCAUCCGGGGAGCCAUCA--GGCGUUCGUACCCGAUUUUGGAGUAGC
---------------(((((.(.((((((((........))))))-)).)........((((..(((....--))).......))))........))))) ( -25.70)
>psp_1 1 96 - 1
ACCCCGCAGCCCAUGGCUGUGGGGUUUUUUCGUCACUGGGAUAUACGCGUAAGU-AACCGGGGAGCCUUUAUUGGCGCUUGAACCCGUAAUUGGAGU---
(((((((((((...)))))))))))..(((((....((((......((....))-...((((..(((......))).))))..))))....))))).--- ( -37.40)
>pss_1 1 96 - 1
ACCCCGCAGCCCAAGGCUGUGGGGUUUUUUCGUCACUGGGAUAUACGCGUAAGU-AACCGGGGAGCCUUUAUUGGCGCUUGAACCCGUAAUUGGAGU---
(((((((((((...)))))))))))..(((((....((((......((....))-...((((..(((......))).))))..))))....))))).--- ( -37.40)
>consensus
ACCCCGCAGCCCAAGGCUGCGGGGUUUUGUCGUCACUGGGAUAAACGCGUAAGU_AACCGGGGAGCCUUCA__GGCGCUUGAACCCGAAAUUGGAGU___
(((((((((((...)))))))))))....(((....((((......((....))....((((..(((......))).))))..))))....)))...... (-29.57 = -30.37 +   0.79)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:48:44 2007