Locus 3450

Sequence ID 3L_DroMel_CAF1
Location 10,113,797 – 10,113,902
Length 105
Max. P 0.934950
window5388 window5389

overview

Window 8

Location 10,113,797 – 10,113,902
Length 105
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 90.63
Mean single sequence MFE -27.73
Consensus MFE -21.33
Energy contribution -21.59
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.48
Structure conservation index 0.77
SVM decision value -0.04
SVM RNA-class probability 0.511252
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10113797 105 + 23771897
UAUUUAAGGGGAUUUAACCAGCAAAAUCCUUGAAAAUACCCUAGCUAUUUUCUCCCCUUUCAAUUUGCGUUAAGUGCUGCUGCUGCUGCCGGGCCAGCAGCCAAG
.....(((((((...................(((((((.......))))))))))))))..............(.(((((((..(((....)))))))))))... ( -24.80)
>DroSec_CAF1 52755 105 + 1
UAUUUAAGGGGAUUUCACCAGCACAAUCCUUAAAAAUAUCCUAGCUUUUUUCUCCCCUUUCAAUUUGCGUUAAGUGCUGCUGCUGCUGCCGGGCCAGCAGCCAAA
.....(((((((.......(((.....................)))......)))))))..............(.(((((((..(((....)))))))))))... ( -24.12)
>DroSim_CAF1 53787 105 + 1
UAUUGAAGGGGAUUUAACCAGCACAAUCCUUGAAAAUAUCCUAGCUAUUUUCGCCCCUUUCAAUUUGCGUUAAGUGCUGCUGCUGCUGCCGGGCCAGCAGCCAAG
.((((((((((........((.......)).(((((((.......)))))))..)))))))))).........(.(((((((..(((....)))))))))))... ( -27.70)
>DroEre_CAF1 57385 102 + 1
UAUUUAAGGGGAUUUAACCAGCGAAAUCCCUGAAAAUAGCCCGGCUAUUUUCACCCCUUUCAAUUUGCGCUAAGUGCUGCU---GCUGCUGGGCCAGCAGCAAAG
.......((((((((........))))))))(((((((((...)))))))))..............((((...))))((((---((((......))))))))... ( -34.30)
>consensus
UAUUUAAGGGGAUUUAACCAGCAAAAUCCUUGAAAAUAUCCUAGCUAUUUUCUCCCCUUUCAAUUUGCGUUAAGUGCUGCUGCUGCUGCCGGGCCAGCAGCCAAG
.....((((((........(((.....................))).......))))))................(((((((..(((....)))))))))).... (-21.33 = -21.59 +   0.25)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 9

Location 10,113,797 – 10,113,902
Length 105
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 90.63
Mean single sequence MFE -32.98
Consensus MFE -27.55
Energy contribution -29.05
Covariance contribution 1.50
Combinations/Pair 1.11
Mean z-score -2.19
Structure conservation index 0.84
SVM decision value 1.24
SVM RNA-class probability 0.934950
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10113797 105 - 23771897
CUUGGCUGCUGGCCCGGCAGCAGCAGCAGCACUUAACGCAAAUUGAAAGGGGAGAAAAUAGCUAGGGUAUUUUCAAGGAUUUUGCUGGUUAAAUCCCCUUAAAUA
....(((((((......)))))))....((.......)).......(((((((.....(((((((.(.((((....))))..).)))))))..)))))))..... ( -31.40)
>DroSec_CAF1 52755 105 - 1
UUUGGCUGCUGGCCCGGCAGCAGCAGCAGCACUUAACGCAAAUUGAAAGGGGAGAAAAAAGCUAGGAUAUUUUUAAGGAUUGUGCUGGUGAAAUCCCCUUAAAUA
....(((((((......)))))))....((.......)).......(((((((.......(((((.(((.((.....)).))).)))))....)))))))..... ( -32.50)
>DroSim_CAF1 53787 105 - 1
CUUGGCUGCUGGCCCGGCAGCAGCAGCAGCACUUAACGCAAAUUGAAAGGGGCGAAAAUAGCUAGGAUAUUUUCAAGGAUUGUGCUGGUUAAAUCCCCUUCAAUA
....(((((((......)))))))....((.......))..((((((.((((......(((((((.(((.((.....)).))).)))))))...)))))))))). ( -33.40)
>DroEre_CAF1 57385 102 - 1
CUUUGCUGCUGGCCCAGCAGC---AGCAGCACUUAGCGCAAAUUGAAAGGGGUGAAAAUAGCCGGGCUAUUUUCAGGGAUUUCGCUGGUUAAAUCCCCUUAAAUA
...((((((((...)))))))---)((.((.....)))).......((((((.(((((((((...)))))))))((.(....).))........))))))..... ( -34.60)
>consensus
CUUGGCUGCUGGCCCGGCAGCAGCAGCAGCACUUAACGCAAAUUGAAAGGGGAGAAAAUAGCUAGGAUAUUUUCAAGGAUUGUGCUGGUUAAAUCCCCUUAAAUA
....(((((((((......))..)))))))................(((((((.....(((((((.(((.((.....)).))).)))))))..)))))))..... (-27.55 = -29.05 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:25 2006