Locus 1288

Sequence ID 2R_DroMel_CAF1
Location 5,028,361 – 5,028,457
Length 96
Max. P 0.999831
window2227 window2228

overview

Window 7

Location 5,028,361 – 5,028,457
Length 96
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 93.01
Mean single sequence MFE -26.12
Consensus MFE -22.64
Energy contribution -23.48
Covariance contribution 0.84
Combinations/Pair 1.04
Mean z-score -3.31
Structure conservation index 0.87
SVM decision value 4.19
SVM RNA-class probability 0.999831
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5028361 96 + 20766785
AAGAAAUAAAGUUUUGGCACAGUCUAAUGGCAAAAAAAAUUGGGCUGUGGGCAGCGAGCCAAAGCCAAGUGAAUUAGGAUUGUGCUAGGAUACGAA
..........(((((((((((((((.....(((......)))((((...(((.....)))..))))..........)))))))))))))))..... ( -31.30)
>DroSec_CAF1 8410 96 + 1
AAGAAAUAAAGUUUUGGCACAGUCAAAUGGCAAAAAAAAUUGGGCAGUGGGCAGCGAGCCAAAGCCAAGUGAAUUAGGAUUGUGCUAGGAUACGAA
..........((((((((((((((......(((......)))(((....(((.....)))...)))...........))))))))))))))..... ( -27.50)
>DroSim_CAF1 8433 96 + 1
AAGAAAUAAAGUUUUGGCACACUCAAAUGGCAAAAAAAAUUGGGCAGUGGGCAGCGAGCCAAAGCCAAGUGAAUUAGAAUUGUGCUAGGAUACGAA
..........(((((((((((.((......(((......)))(((....(((.....)))...)))..........))..)))))))))))..... ( -22.00)
>DroEre_CAF1 8385 95 + 1
AACAAAUUGAGUUUUGGCACAGGCAAAUGGCAAAA-GAAUUGGGCAGUGGGCAGCGAGCCAAAGCCAAGUGAACUGGGAUUGUGCUAGGAUACGAA
......(((.((((((((((((((.....))....-......(((....(((.....)))...))).............)))))))))))).))). ( -25.80)
>DroYak_CAF1 8587 94 + 1
AAGAAAUAAAGUUUUGGCACAGGCAAAUGGCAAAA--AAUUCGGUAGUGGGCAGCGAGCCAAAGCCAAGUGAACUGGGAUUGUGCUAGGAUACGAA
..........((((((((((..((.....))....--((((((((....(((.....)))...))).((....)).)))))))))))))))..... ( -24.00)
>consensus
AAGAAAUAAAGUUUUGGCACAGUCAAAUGGCAAAAAAAAUUGGGCAGUGGGCAGCGAGCCAAAGCCAAGUGAAUUAGGAUUGUGCUAGGAUACGAA
..........((((((((((((((......(((......)))(((....(((.....)))...)))...........))))))))))))))..... (-22.64 = -23.48 +   0.84)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 5,028,361 – 5,028,457
Length 96
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 93.01
Mean single sequence MFE -15.89
Consensus MFE -12.74
Energy contribution -13.14
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.41
Structure conservation index 0.80
SVM decision value 0.02
SVM RNA-class probability 0.541368
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5028361 96 - 20766785
UUCGUAUCCUAGCACAAUCCUAAUUCACUUGGCUUUGGCUCGCUGCCCACAGCCCAAUUUUUUUUGCCAUUAGACUGUGCCAAAACUUUAUUUCUU
...........(((((...(((((......((((..(((.....)))...))))(((......)))..)))))..)))))................ ( -17.60)
>DroSec_CAF1 8410 96 - 1
UUCGUAUCCUAGCACAAUCCUAAUUCACUUGGCUUUGGCUCGCUGCCCACUGCCCAAUUUUUUUUGCCAUUUGACUGUGCCAAAACUUUAUUUCUU
...........(((((.((...........(((...(((.....)))....)))(((......)))......)).)))))................ ( -15.70)
>DroSim_CAF1 8433 96 - 1
UUCGUAUCCUAGCACAAUUCUAAUUCACUUGGCUUUGGCUCGCUGCCCACUGCCCAAUUUUUUUUGCCAUUUGAGUGUGCCAAAACUUUAUUUCUU
...........(((((.(((..........(((...(((.....)))....)))(((......)))......))))))))................ ( -16.00)
>DroEre_CAF1 8385 95 - 1
UUCGUAUCCUAGCACAAUCCCAGUUCACUUGGCUUUGGCUCGCUGCCCACUGCCCAAUUC-UUUUGCCAUUUGCCUGUGCCAAAACUCAAUUUGUU
.............((((....((((...(((((...(((..((........)).(((...-..)))......)))...)))))))))....)))). ( -15.60)
>DroYak_CAF1 8587 94 - 1
UUCGUAUCCUAGCACAAUCCCAGUUCACUUGGCUUUGGCUCGCUGCCCACUACCGAAUU--UUUUGCCAUUUGCCUGUGCCAAAACUUUAUUUCUU
...........(((((.....((....)).(((..((((....................--....))))...))))))))................ ( -14.56)
>consensus
UUCGUAUCCUAGCACAAUCCUAAUUCACUUGGCUUUGGCUCGCUGCCCACUGCCCAAUUUUUUUUGCCAUUUGACUGUGCCAAAACUUUAUUUCUU
...........(((((..............(((...(((.....)))....)))(((......))).........)))))................ (-12.74 = -13.14 +   0.40)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:00 2006