Locus 9294

Sequence ID 3R_DroMel_CAF1
Location 24,763,180 – 24,763,323
Length 143
Max. P 0.896983
window14857 window14858

overview

Window 7

Location 24,763,180 – 24,763,297
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 96.25
Mean single sequence MFE -23.67
Consensus MFE -21.35
Energy contribution -21.85
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.90
SVM decision value -0.00
SVM RNA-class probability 0.532820
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24763180 117 - 27905053
---AUGUGAAAAACGAGUGCAAGUGGAAAAAUAAAACAUUUUUGCAAUUAAUUGCGCUCAAUUUAAAAUGUUGCAAAAUUAAUUCAAGAGUCAUGCCAAAUACACAGGCGCAGUCAUUUA
---...........((((((((.((.((((((.....)))))).)).....))))))))......(((((((((.......(((....)))...(((.........))))))).))))). ( -24.80)
>DroPse_CAF1 14608 120 - 1
UGUGUGGGAAAAACGAGUGCAAGUGGAAAAAUAAAACAUUUUUGCAAUUAAUUGCGCUCAAUUUAAAAUGUUGCAAAAUUAAUUCAAGAGUCAUGCCAAAUACAGAGGCACAGUCAUUUA
(((((.........((((((((.((.((((((.....)))))).)).....)))))))).........(((.(((..(((........)))..))).....)))...)))))........ ( -22.40)
>DroWil_CAF1 12022 120 - 1
UGUGUGUGAAAAACGAGUGCAAGUGGAAAAAUAAAACAUUUUUGCAAUUAAUUGCGCUCAAUUUAAAAUGUUGCAAAAUUAAUUCAAGAGUCAUGCCAAAUACACAGGCGCAGUCAUUUA
(((((.((......((((((((.((.((((((.....)))))).)).....)))))))).............(((..(((........)))..)))........)).)))))........ ( -25.40)
>DroPer_CAF1 14794 120 - 1
UGUGGGGGAAAAACGAGUGCAAGUGGAAAAAUAAAACAUUUUUGCAAUUAAUUGCGCUCAAUUUAAAAUGUUGCAAAAUUAAUUCAAGAGUCAUGCCAAAUACAGAGGCACAGUCAUUUA
((..(.(.......((((((((.((.((((((.....)))))).)).....)))))))).........).)..))............((.(..((((.........)))).).))..... ( -22.09)
>consensus
UGUGUGGGAAAAACGAGUGCAAGUGGAAAAAUAAAACAUUUUUGCAAUUAAUUGCGCUCAAUUUAAAAUGUUGCAAAAUUAAUUCAAGAGUCAUGCCAAAUACACAGGCACAGUCAUUUA
..............((((((((.((.((((((.....)))))).)).....))))))))......(((((((((.......(((....)))...(((.........))))))).))))). (-21.35 = -21.85 +   0.50)

alignment

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secondary structure

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dotplot

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Window 8

Location 24,763,220 – 24,763,323
Length 103
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 84.85
Mean single sequence MFE -24.49
Consensus MFE -18.19
Energy contribution -18.53
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.57
Structure conservation index 0.74
SVM decision value 0.99
SVM RNA-class probability 0.896983
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24763220 103 - 27905053
U----AUGCAAUGGAAAGUGUGUAUGUGCA---AUGUGAAAAACGAGUGCAAGUGGAAAAAUAAAACAUUUUUGCAAUUAAUUGCGCUCAAUUUAAAAUGUUGCAAAAUU
(----(((((.(....)...))))))((((---((((.......((((((((.((.((((((.....)))))).)).....))))))))........))))))))..... ( -25.76)
>DroPse_CAF1 14648 110 - 1
CAGAAAUGCAAUUGGGUGUAUGUGUGUGGGUGUGUGGGAAAAACGAGUGCAAGUGGAAAAAUAAAACAUUUUUGCAAUUAAUUGCGCUCAAUUUAAAAUGUUGCAAAAUU
......((((((...(..(((.(....).)))..).........((((((((.((.((((((.....)))))).)).....))))))))..........))))))..... ( -22.40)
>DroWil_CAF1 12062 107 - 1
-AUAUAUACAAUUCUGAUU--GUGUGUGUGUGUGUGUGAAAAACGAGUGCAAGUGGAAAAAUAAAACAUUUUUGCAAUUAAUUGCGCUCAAUUUAAAAUGUUGCAAAAUU
-(((((((((((....)))--))))))))...(((((.....))((((((((.((.((((((.....)))))).)).....)))))))).............)))..... ( -25.30)
>consensus
_A_A_AUGCAAUUGAGAGU_UGUGUGUGCGUGUGUGUGAAAAACGAGUGCAAGUGGAAAAAUAAAACAUUUUUGCAAUUAAUUGCGCUCAAUUUAAAAUGUUGCAAAAUU
......((((((.............((...............))((((((((.((.((((((.....)))))).)).....))))))))..........))))))..... (-18.19 = -18.53 +   0.33)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:30:53 2006