Locus 7226

Sequence ID X_DroMel_CAF1
Location 18,067,199 – 18,067,318
Length 119
Max. P 0.858641
window11817 window11818

overview

Window 7

Location 18,067,199 – 18,067,318
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.72
Mean single sequence MFE -37.27
Consensus MFE -31.74
Energy contribution -32.30
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -2.56
Structure conservation index 0.85
SVM decision value 0.82
SVM RNA-class probability 0.858641
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18067199 119 + 22224390
UGCCAC-CUGAAGACUUCCUUGGGGAUUUUGGUAAGAUAUGAUUUUCUCAUCUCCCCGCCAUAUACAUAUGUGCACUUUCCCAAAGAGCGUCUGGUAGUCCCAUUGUUCUGCCAUUCGGU
......-(((((((((((.(((((((....((..((((..(.....)..))))..))((((((....)))).))...))))))).))).)))((((((..(....)..))))))))))). ( -34.70)
>DroSec_CAF1 4988 117 + 1
UGCCAC-CUGAAGGCUUCCUUGGGGAUUUUGGCGGAAUAUGAUUUACGCAUCUCCCAGCCAU--ACAUAUGUGCACUUUCCCAAAGAGCGUCUGGUAGUCCCAUUGUUCUGCCACUCGGU
.(((.(-((.((((...)))).)))....((((((((((......((((........(((((--....))).)).(((.....))).)))).(((.....))).))))))))))...))) ( -33.10)
>DroSim_CAF1 8130 118 + 1
UGCCACUCUGAAGACUUCUUUGGGGAUUUUGGCGGGAUAUGAUUUACUCAUCUCCCAGCCAU--ACAUAUGUGCACUUUCCCAAAGAGCGUCUGGUAGUCCCAUUGUUCUGCCACUCGGU
.(((.......(((((((((((((((...((((((((.((((.....)))).)))).))))(--((....)))....))))))))))).))))(((((..(....)..)))))....))) ( -44.00)
>consensus
UGCCAC_CUGAAGACUUCCUUGGGGAUUUUGGCGGGAUAUGAUUUACUCAUCUCCCAGCCAU__ACAUAUGUGCACUUUCCCAAAGAGCGUCUGGUAGUCCCAUUGUUCUGCCACUCGGU
.(((.......(((((((.(((((((...((((((((.(((.......))).)))).))))...((....)).....))))))).))).))))(((((..(....)..)))))....))) (-31.74 = -32.30 +   0.56)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 18,067,199 – 18,067,318
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.72
Mean single sequence MFE -38.20
Consensus MFE -31.09
Energy contribution -30.43
Covariance contribution -0.65
Combinations/Pair 1.19
Mean z-score -2.51
Structure conservation index 0.81
SVM decision value 0.48
SVM RNA-class probability 0.751702
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18067199 119 - 22224390
ACCGAAUGGCAGAACAAUGGGACUACCAGACGCUCUUUGGGAAAGUGCACAUAUGUAUAUGGCGGGGAGAUGAGAAAAUCAUAUCUUACCAAAAUCCCCAAGGAAGUCUUCAG-GUGGCA
.((.(.((......)).).)).(((((((((..((((((((.....((.((((....))))))((..(((((.(.....).)))))..))......)))))))).))))...)-)))).. ( -37.90)
>DroSec_CAF1 4988 117 - 1
ACCGAGUGGCAGAACAAUGGGACUACCAGACGCUCUUUGGGAAAGUGCACAUAUGU--AUGGCUGGGAGAUGCGUAAAUCAUAUUCCGCCAAAAUCCCCAAGGAAGCCUUCAG-GUGGCA
((((((.(((.......(((.....))).....((((((((...(((((....)))--))(((.((((.(((.......))).)))))))......)))))))).)))))).)-)).... ( -35.50)
>DroSim_CAF1 8130 118 - 1
ACCGAGUGGCAGAACAAUGGGACUACCAGACGCUCUUUGGGAAAGUGCACAUAUGU--AUGGCUGGGAGAUGAGUAAAUCAUAUCCCGCCAAAAUCCCCAAAGAAGUCUUCAGAGUGGCA
.....((.((.......(((.....)))(((..((((((((...(((((....)))--))(((.((((.((((.....)))).)))))))......)))))))).)))......)).)). ( -41.20)
>consensus
ACCGAGUGGCAGAACAAUGGGACUACCAGACGCUCUUUGGGAAAGUGCACAUAUGU__AUGGCUGGGAGAUGAGUAAAUCAUAUCCCGCCAAAAUCCCCAAGGAAGUCUUCAG_GUGGCA
...(((.(((.......(((.....))).....((((((((.....(((....)))...((((.((((.((((.....)))).)))))))).....)))))))).))))))......... (-31.09 = -30.43 +  -0.65)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:26 2006