Locus 159

Sequence ID X_DroMel_CAF1
Location 572,120 – 572,227
Length 107
Max. P 0.945533
window252 window253

overview

Window 2

Location 572,120 – 572,227
Length 107
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 92.45
Mean single sequence MFE -36.27
Consensus MFE -27.95
Energy contribution -27.73
Covariance contribution -0.21
Combinations/Pair 1.16
Mean z-score -2.64
Structure conservation index 0.77
SVM decision value 0.31
SVM RNA-class probability 0.683445
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 572120 107 + 22224390
AGGAUGGAGAAGGGGUCGGAAGGUAGGGGAAAGUAGCUGAGGAGGAGCCACUACUGAAGCUGCAGAAGCUGCAGCGGCCGCUGAUAAAGCAGCUUGACAGCUGCGAG
..........((.((((....(((((.((....(..(....)..)..)).)))))...(((((((...))))))))))).))......((((((....))))))... ( -36.00)
>DroSec_CAF1 35895 104 + 1
AGGAUGGAGAAGGGGCUGGGGAGUAGG-GAAAGGGGCCGAGGAGGAGCCACUACUGAAGCUACAGAAGCUGCAGCGGCCGCUGAUAAAGCAGCUUGACAGC--CGAG
.............(((((..((((...-......(((((.((.....))....(((.((((.....)))).))))))))(((.....))).))))..))))--)... ( -36.40)
>DroSim_CAF1 35433 104 + 1
AGGAUGGAGAAGGGGCUGGGGAGUAGG-GAAAGGGGCCGAGGAGGAGCCACUACUGAAGCUACAGAAGCUGCAGCGGCCGCUGAUAAAGCAGCUUGACAGC--CGAG
.............(((((..((((...-......(((((.((.....))....(((.((((.....)))).))))))))(((.....))).))))..))))--)... ( -36.40)
>consensus
AGGAUGGAGAAGGGGCUGGGGAGUAGG_GAAAGGGGCCGAGGAGGAGCCACUACUGAAGCUACAGAAGCUGCAGCGGCCGCUGAUAAAGCAGCUUGACAGC__CGAG
..............((((..((((..........(((((.((.....))....(((.((((.....)))).))))))))(((.....))).))))..))))...... (-27.95 = -27.73 +  -0.21) 

alignment

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secondary structure

Postscript

dotplot

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Window 3

Location 572,120 – 572,227
Length 107
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 92.45
Mean single sequence MFE -30.93
Consensus MFE -26.12
Energy contribution -25.90
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -3.48
Structure conservation index 0.84
SVM decision value 1.35
SVM RNA-class probability 0.945533
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 572120 107 - 22224390
CUCGCAGCUGUCAAGCUGCUUUAUCAGCGGCCGCUGCAGCUUCUGCAGCUUCAGUAGUGGCUCCUCCUCAGCUACUUUCCCCUACCUUCCGACCCCUUCUCCAUCCU
...((((((....))))))........(((..(((((((...)))))))......(((((((.......)))))))............)))................ ( -31.20)
>DroSec_CAF1 35895 104 - 1
CUCG--GCUGUCAAGCUGCUUUAUCAGCGGCCGCUGCAGCUUCUGUAGCUUCAGUAGUGGCUCCUCCUCGGCCCCUUUC-CCUACUCCCCAGCCCCUUCUCCAUCCU
...(--((((....((((......))))(((((((((((...))))))).......(.((.....)).)))))......-.........)))))............. ( -30.80)
>DroSim_CAF1 35433 104 - 1
CUCG--GCUGUCAAGCUGCUUUAUCAGCGGCCGCUGCAGCUUCUGUAGCUUCAGUAGUGGCUCCUCCUCGGCCCCUUUC-CCUACUCCCCAGCCCCUUCUCCAUCCU
...(--((((....((((......))))(((((((((((...))))))).......(.((.....)).)))))......-.........)))))............. ( -30.80)
>consensus
CUCG__GCUGUCAAGCUGCUUUAUCAGCGGCCGCUGCAGCUUCUGUAGCUUCAGUAGUGGCUCCUCCUCGGCCCCUUUC_CCUACUCCCCAGCCCCUUCUCCAUCCU
......((((....((((......))))(((((((((((((.....))))...)))))))))......))))................................... (-26.12 = -25.90 +  -0.22) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:32 2006