Locus 3025

Sequence ID 2R_DroMel_CAF1
Location 10,437,159 – 10,437,255
Length 96
Max. P 0.791191
window4987 window4988

overview

Window 7

Location 10,437,159 – 10,437,255
Length 96
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 76.68
Mean single sequence MFE -17.15
Consensus MFE -11.86
Energy contribution -12.75
Covariance contribution 0.89
Combinations/Pair 1.29
Mean z-score -1.31
Structure conservation index 0.69
SVM decision value 0.59
SVM RNA-class probability 0.791191
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10437159 96 + 20766785
GACCA---CAA--CAAUGAGAAAUCACUACCAUUUCAGCCACAAUGGCGAUGAAGUAAUUUUAUUAUGUGUAUCUUGACACUUGAAAUUAUGAAAAAGAAG
.....---...--...(((....)))......((((.(((.....)))......(((((((((....((((......)))).)))))))))))))...... ( -17.40)
>DroPse_CAF1 37487 80 + 1
GACCGCCGCCA--CAAUGGGAAACCACAUCAACUCCAUCCACAAUGGAAAUGAAGUAAUUUC----UAUGUAUUUUAACACUUGAA---------------
...........--...(((....)))..((((...........((((((((......)))))----)))............)))).--------------- ( -12.80)
>DroSim_CAF1 39691 96 + 1
GACCA---CAA--CAAUGAGAAAUCACCUCGGCUUCAGCCACAAUGGCGAUGAAGUAAUUUUAUUAUGUGUACCUUGACACUUGAAAUCAUGAAAAAGAAG
.....---...--...(((....)))..((((((((((((.....)))..)))))).((((((....((((......)))).))))))..)))........ ( -16.90)
>DroEre_CAF1 38858 96 + 1
GACCG---CAA--CAAUGGGAAAUCACCUCAACUUCAGCCACAAUGGCGAUGAAGUAAUUUUAUUAUGUGUAUCUUGACACUUGAAACUAUGAAAAAGGAG
..((.---...--..((((............(((((((((.....)))..)))))).......(((.((((......)))).)))..))))......)).. ( -18.40)
>DroYak_CAF1 41117 98 + 1
GACCA---CAACACAAUGAGAAAUCACCUCAACUUCAGCCACAAUGGCGUUGAAGUAAUUUCAUUAUGUGUAUCUUGACACUUGAAAUUAUGAAAAAGGAG
..((.---((((....((((.......))))......(((.....)))))))..(((((((((....((((......)))).)))))))))......)).. ( -24.60)
>DroPer_CAF1 43704 80 + 1
GACCGCCGCCA--CAAUGGGAAACCACAUCAACUCCAUCCACAAUGGAAAUGAAGUAAUUUC----UAUGUAUUUUAACACUUGAA---------------
...........--...(((....)))..((((...........((((((((......)))))----)))............)))).--------------- ( -12.80)
>consensus
GACCA___CAA__CAAUGAGAAAUCACCUCAACUUCAGCCACAAUGGCGAUGAAGUAAUUUCAUUAUGUGUAUCUUGACACUUGAAAUUAUGAAAAAG_AG
................(((....))).....(((((((((.....)))..))))))..(((((....((((......)))).))))).............. (-11.86 = -12.75 +   0.89)

alignment

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secondary structure

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dotplot

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Window 8

Location 10,437,159 – 10,437,255
Length 96
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 76.68
Mean single sequence MFE -21.42
Consensus MFE -12.92
Energy contribution -12.78
Covariance contribution -0.14
Combinations/Pair 1.22
Mean z-score -1.45
Structure conservation index 0.60
SVM decision value 0.19
SVM RNA-class probability 0.625482
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10437159 96 - 20766785
CUUCUUUUUCAUAAUUUCAAGUGUCAAGAUACACAUAAUAAAAUUACUUCAUCGCCAUUGUGGCUGAAAUGGUAGUGAUUUCUCAUUG--UUG---UGGUC
....................((((....)))).((((((((.......((((..(((((........)))))..)))).......)))--)))---))... ( -19.64)
>DroPse_CAF1 37487 80 - 1
---------------UUCAAGUGUUAAAAUACAUA----GAAAUUACUUCAUUUCCAUUGUGGAUGGAGUUGAUGUGGUUUCCCAUUG--UGGCGGCGGUC
---------------......((((....((((..----((((((((.(((.(((((((...))))))).))).))))))))....))--))..))))... ( -19.50)
>DroSim_CAF1 39691 96 - 1
CUUCUUUUUCAUGAUUUCAAGUGUCAAGGUACACAUAAUAAAAUUACUUCAUCGCCAUUGUGGCUGAAGCCGAGGUGAUUUCUCAUUG--UUG---UGGUC
...((((..(((........)))..))))....((((((((.....(((((..(((.....))))))))..((((.....)))).)))--)))---))... ( -19.90)
>DroEre_CAF1 38858 96 - 1
CUCCUUUUUCAUAGUUUCAAGUGUCAAGAUACACAUAAUAAAAUUACUUCAUCGCCAUUGUGGCUGAAGUUGAGGUGAUUUCCCAUUG--UUG---CGGUC
.............((..(((((((......))))......((((((((((((((((.....))).))...)))))))))))....)))--..)---).... ( -20.30)
>DroYak_CAF1 41117 98 - 1
CUCCUUUUUCAUAAUUUCAAGUGUCAAGAUACACAUAAUGAAAUUACUUCAACGCCAUUGUGGCUGAAGUUGAGGUGAUUUCUCAUUGUGUUG---UGGUC
........(((((.......((((....))))((((((((((((((((((((((((.....)))....))))))))))))..)))))))))))---))).. ( -29.70)
>DroPer_CAF1 43704 80 - 1
---------------UUCAAGUGUUAAAAUACAUA----GAAAUUACUUCAUUUCCAUUGUGGAUGGAGUUGAUGUGGUUUCCCAUUG--UGGCGGCGGUC
---------------......((((....((((..----((((((((.(((.(((((((...))))))).))).))))))))....))--))..))))... ( -19.50)
>consensus
CU_CUUUUUCAUAAUUUCAAGUGUCAAGAUACACAUAAUAAAAUUACUUCAUCGCCAUUGUGGCUGAAGUUGAGGUGAUUUCCCAUUG__UUG___CGGUC
....................((((......))))......(((((((((((..(((.....)))......))))))))))).................... (-12.92 = -12.78 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:29 2006