Locus 5730

Sequence ID 2R_DroMel_CAF1
Location 18,159,014 – 18,159,129
Length 115
Max. P 0.890353
window9176 window9177

overview

Window 6

Location 18,159,014 – 18,159,129
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.35
Mean single sequence MFE -31.20
Consensus MFE -22.38
Energy contribution -22.94
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -2.40
Structure conservation index 0.72
SVM decision value 0.62
SVM RNA-class probability 0.803183
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18159014 115 + 20766785
UUCUCUCUGCAUACCGAUGCAACUUGACUUACUUGACAAGCAAGUUAAGCAUGUGGUAUCCAUCUGCUUGCCAUUGGGCAAAGGGUAAAAAUCCAU-----UGUUAUUUUGCAGAUCGAU
.((..((((((..(((((((((((((.(((.......)))))))))(((((.((((...)))).)))))).))))))((((.((((....)))).)-----))).....))))))..)). ( -35.90)
>DroSec_CAF1 6727 115 + 1
UACUCUCUGCAUACCGAUGCAACUUGACUUACUUGACAAGCAAGUAAAGCAUGUGGUAUACAGCUGAUUGCCAUUGGGCAAAGGGUAAAAAUCUAU-----UGUUAUUUUGCAGAUCUGU
.....(((((((((((((((.(((((.(((.......))))))))...)))).))))))...(((..(((((....)))))..)))..........-----.........)))))..... ( -30.60)
>DroSim_CAF1 6454 111 + 1
UACUCUCUGCAUACCGAUGCAACU---------UGACAAGCAAGUAAAGCAUGUGGUAUACAGCAGAUUGCCAUUGGGCCAAGGGUAAAAAUUUAUAAAUCUAUUAUUUUGCAGAUCUGU
......(((.((((((((((.(((---------((.....)))))...)))).)))))).)))(((((((((....))).....((((((....(((....)))..)))))).)))))). ( -27.10)
>consensus
UACUCUCUGCAUACCGAUGCAACUUGACUUACUUGACAAGCAAGUAAAGCAUGUGGUAUACAGCUGAUUGCCAUUGGGCAAAGGGUAAAAAUCUAU_____UGUUAUUUUGCAGAUCUGU
.....(((((((((((((((.(((((..............)))))...)))).))))))........(((((....))))).((((....))))................)))))..... (-22.38 = -22.94 +   0.56)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 18,159,014 – 18,159,129
Length 115
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 85.35
Mean single sequence MFE -31.50
Consensus MFE -21.47
Energy contribution -23.80
Covariance contribution 2.33
Combinations/Pair 1.00
Mean z-score -2.89
Structure conservation index 0.68
SVM decision value 0.96
SVM RNA-class probability 0.890353
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18159014 115 - 20766785
AUCGAUCUGCAAAAUAACA-----AUGGAUUUUUACCCUUUGCCCAAUGGCAAGCAGAUGGAUACCACAUGCUUAACUUGCUUGUCAAGUAAGUCAAGUUGCAUCGGUAUGCAGAGAGAA
.((.((((((.........-----..((........)).(((((....)))))))))))(.(((((..((((..((((((((((.....)))).)))))))))).))))).).))..... ( -32.60)
>DroSec_CAF1 6727 115 - 1
ACAGAUCUGCAAAAUAACA-----AUAGAUUUUUACCCUUUGCCCAAUGGCAAUCAGCUGUAUACCACAUGCUUUACUUGCUUGUCAAGUAAGUCAAGUUGCAUCGGUAUGCAGAGAGUA
..(((((((..........-----.))))))).(((.(((((((....)))))....(((((((((..((((...(((((((((.....)))).))))).)))).))))))))))).))) ( -31.70)
>DroSim_CAF1 6454 111 - 1
ACAGAUCUGCAAAAUAAUAGAUUUAUAAAUUUUUACCCUUGGCCCAAUGGCAAUCUGCUGUAUACCACAUGCUUUACUUGCUUGUCA---------AGUUGCAUCGGUAUGCAGAGAGUA
..(((((((........))))))).................(((....)))..(((.(((((((((..((((...(((((.....))---------))).)))).))))))))))))... ( -30.20)
>consensus
ACAGAUCUGCAAAAUAACA_____AUAGAUUUUUACCCUUUGCCCAAUGGCAAUCAGCUGUAUACCACAUGCUUUACUUGCUUGUCAAGUAAGUCAAGUUGCAUCGGUAUGCAGAGAGUA
.....(((((.............................(((((....)))))........(((((..((((...(((((((((.....)))).))))).)))).))))))))))..... (-21.47 = -23.80 +   2.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:55 2006