Locus 52

Sequence ID	pao_1
Location	4,756,857 – 4,756,961
Length	104
Max. P	0.991240

overview

Window 0

Location	4,756,857 – 4,756,961
Length	104
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	89.59
Mean single sequence MFE	-36.41
Consensus MFE	-30.35
Energy contribution	-31.41
Covariance contribution	1.06
Combinations/Pair	1.09
Mean z-score	-3.69
Structure conservation index	0.83
SVM decision value	2.26
SVM RNA-class probability	0.991240
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 4756857 104 + 1
ACUCCAAUUGACAGCUACCCUGCGCCCAGGAAGCCAAGAAA--GGGCGCG-GAUAUUAGCGCUGUAAUAGCAAAUAAUCAACCCGGCAGCACACUAGCUGCCGGGUU
.............((((..((((((((..............--)))))))-)....))))((((...))))........(((((((((((......))))))))))) ( -43.54)
>pau_1 1 104 + 1
ACUCCAAUUGACAGCUACCCUGCGCCCAGGAAGCCAAGAAA--GGGCGCG-GAUAUUAGCGCUGUAAUAGCAAAUAAUCAACCCGGCAGCACACUAGCUGCCGGGUU
.............((((..((((((((..............--)))))))-)....))))((((...))))........(((((((((((......))))))))))) ( -43.54)
>pel_1 1 106 + 1
ACUCCAAUUGACAGCUACC-UACGCCCCGGAAGCCAAGAAAUAGGGCGCGAGAUAAUAUCGCUGUAGAAACGAAUAAUCAACCCAGCAGCACACUAGCUGCUGGGUU
..................(-((((((((....)..........))))((((.......)))).))))............(((((((((((......))))))))))) ( -36.50)
>pfo_1 1 104 + 1
ACUCCAAUUGACAGCUACC-UACGCCCCGGAAGCCAAGAAAUAGGGCGCGAGAUAAUAUCGCUGUAAUAACAAAUAAUCAACCCGGUAGCGCACUAGCUACCGGG--
..........(((((....-..((((((...............))).))).(((...))))))))................(((((((((......)))))))))-- ( -33.86)
>ppk_1 1 106 + 1
ACUCCAAUUGACAGCUACC-UACGCCCCGGAAGCCAAGAAAUAGGGCGCGAGAUAAUAUCGCUGUAGAAACGAAUAAUCAACCCAGCAGCACACUAGCUGCUGGGUU
..................(-((((((((....)..........))))((((.......)))).))))............(((((((((((......))))))))))) ( -36.50)
>pss_1 1 100 + 1
ACUCCAAUUGACAGCUACC-UACGCCCCGGAAGCCAAGAAAUAGGGCGCGAGAUAAUAUCGCUGUAGUAACAAAUAAUCAACCCAGCAGCGCACUAGCUGC------
.......(((...(((((.-...(((((....)..........))))((((.......)))).)))))..)))............(((((......)))))------ ( -24.50)
>consensus
ACUCCAAUUGACAGCUACC_UACGCCCCGGAAGCCAAGAAAUAGGGCGCGAGAUAAUAUCGCUGUAAUAACAAAUAAUCAACCCAGCAGCACACUAGCUGCCGGGUU
..........(((((.......(((((................))))).((.......)))))))..............(((((((((((......))))))))))) (-30.35 = -31.41 +   1.06)

alignment

secondary structure

dotplot

Window 1

Location	4,756,857 – 4,756,961
Length	104
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	89.59
Mean single sequence MFE	-41.24
Consensus MFE	-33.85
Energy contribution	-34.69
Covariance contribution	0.84
Combinations/Pair	1.11
Mean z-score	-3.26
Structure conservation index	0.82
SVM decision value	1.62
SVM RNA-class probability	0.968118
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 4756857 104 - 1
AACCCGGCAGCUAGUGUGCUGCCGGGUUGAUUAUUUGCUAUUACAGCGCUAAUAUC-CGCGCCC--UUUCUUGGCUUCCUGGGCGCAGGGUAGCUGUCAAUUGGAGU
(((((((((((......))))))))))).........(((..(((((.....((((-(((((((--..............)))))).))))))))))....)))... ( -46.24)
>pau_1 1 104 - 1
AACCCGGCAGCUAGUGUGCUGCCGGGUUGAUUAUUUGCUAUUACAGCGCUAAUAUC-CGCGCCC--UUUCUUGGCUUCCUGGGCGCAGGGUAGCUGUCAAUUGGAGU
(((((((((((......))))))))))).........(((..(((((.....((((-(((((((--..............)))))).))))))))))....)))... ( -46.24)
>pel_1 1 106 - 1
AACCCAGCAGCUAGUGUGCUGCUGGGUUGAUUAUUCGUUUCUACAGCGAUAUUAUCUCGCGCCCUAUUUCUUGGCUUCCGGGGCGUA-GGUAGCUGUCAAUUGGAGU
(((((((((((......))))))))))).....((((.....(((((.....(((((.(((((((..............))))))))-)))))))))....)))).. ( -42.14)
>pfo_1 1 104 - 1
--CCCGGUAGCUAGUGCGCUACCGGGUUGAUUAUUUGUUAUUACAGCGAUAUUAUCUCGCGCCCUAUUUCUUGGCUUCCGGGGCGUA-GGUAGCUGUCAAUUGGAGU
--(((((((((......)))))))))(..(((..((((....)))).((((((((((.(((((((..............))))))))-))))).)))))))..)... ( -38.44)
>ppk_1 1 106 - 1
AACCCAGCAGCUAGUGUGCUGCUGGGUUGAUUAUUCGUUUCUACAGCGAUAUUAUCUCGCGCCCUAUUUCUUGGCUUCCGGGGCGUA-GGUAGCUGUCAAUUGGAGU
(((((((((((......))))))))))).....((((.....(((((.....(((((.(((((((..............))))))))-)))))))))....)))).. ( -42.14)
>pss_1 1 100 - 1
------GCAGCUAGUGCGCUGCUGGGUUGAUUAUUUGUUACUACAGCGAUAUUAUCUCGCGCCCUAUUUCUUGGCUUCCGGGGCGUA-GGUAGCUGUCAAUUGGAGU
------(((((......)))))(.(((((((.....((((((((.((((.......))))(((((..............))))))))-.))))).))))))).)... ( -32.24)
>consensus
AACCCGGCAGCUAGUGUGCUGCCGGGUUGAUUAUUUGUUACUACAGCGAUAUUAUCUCGCGCCCUAUUUCUUGGCUUCCGGGGCGUA_GGUAGCUGUCAAUUGGAGU
(((((((((((......)))))))))))..............(((((.....((((..(((((((..............)))))))..))))))))).......... (-33.85 = -34.69 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:48:33 2007