Locus 6592

Sequence ID 3R_DroMel_CAF1
Location 17,346,036 – 17,346,143
Length 107
Max. P 0.996743
window10731 window10732

overview

Window 1

Location 17,346,036 – 17,346,143
Length 107
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.69
Mean single sequence MFE -34.74
Consensus MFE -23.19
Energy contribution -23.87
Covariance contribution 0.67
Combinations/Pair 1.11
Mean z-score -3.47
Structure conservation index 0.67
SVM decision value 2.74
SVM RNA-class probability 0.996743
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17346036 107 + 27905053
-------------AAAUGUAUAUAGUGGCGCCAUCGGAAACUAAAGUCGGCCGCUACCAGAAUAGUAGUUCGGAAGUAGACCGUAAAGGUGGAGCCACUAUACAUGAAAUGCUCAGCGGA
-------------..(((((..(((((((.((((((....)......((((..((.((.((((....)))))).))..).)))....))))).))))))))))))............... ( -35.20)
>DroSim_CAF1 4035 107 + 1
-------------AAAUGUAUAUAGUGGCGCCAUCGGAAACCAAAGUCGGCCGCUUACAGAAAAGUAGUUCAGAAGUAGACCGUAAAGGUGGAGCCACUAUAUAUGAAAUGCACAGCGGA
-------------....((((((((((((.((((((....)......((((..(((...(((......)))..)))..).)))....))))).))))))))))))............... ( -34.80)
>DroYak_CAF1 5439 119 + 1
GAGUAACGGGUAAAAAUAUACAGAGUGGCGCCAUCGGAAAAUAAAGUUGGCCGCUUAAAGAAAAUUAGUUCGGUAAUAGACCGUAAAGAUGGAGCCACUAUACAUGAAUUGCCCAG-GCA
..((...((((((..........((((((.(((((((..(((...)))..))..................((((.....))))....))))).)))))).........))))))..-)). ( -34.21)
>consensus
_____________AAAUGUAUAUAGUGGCGCCAUCGGAAACUAAAGUCGGCCGCUUACAGAAAAGUAGUUCGGAAGUAGACCGUAAAGGUGGAGCCACUAUACAUGAAAUGCACAGCGGA
................(((.(((((((((.((((((....)......((((.(((....(((......)))...))).).)))....))))).))))))))).))).............. (-23.19 = -23.87 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 17,346,036 – 17,346,143
Length 107
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 80.69
Mean single sequence MFE -29.61
Consensus MFE -23.58
Energy contribution -23.37
Covariance contribution -0.21
Combinations/Pair 1.17
Mean z-score -2.73
Structure conservation index 0.80
SVM decision value 2.35
SVM RNA-class probability 0.992697
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17346036 107 - 27905053
UCCGCUGAGCAUUUCAUGUAUAGUGGCUCCACCUUUACGGUCUACUUCCGAACUACUAUUCUGGUAGCGGCCGACUUUAGUUUCCGAUGGCGCCACUAUAUACAUUU-------------
................(((((((((((.(((......(((.......)))..(((((.....)))))(((..(((....))).))).))).))))))))))).....------------- ( -30.20)
>DroSim_CAF1 4035 107 - 1
UCCGCUGUGCAUUUCAUAUAUAGUGGCUCCACCUUUACGGUCUACUUCUGAACUACUUUUCUGUAAGCGGCCGACUUUGGUUUCCGAUGGCGCCACUAUAUACAUUU-------------
................(((((((((((.(((......(((((..((((.(((......))).).))).)))))...((((...))))))).))))))))))).....------------- ( -29.30)
>DroYak_CAF1 5439 119 - 1
UGC-CUGGGCAAUUCAUGUAUAGUGGCUCCAUCUUUACGGUCUAUUACCGAACUAAUUUUCUUUAAGCGGCCAACUUUAUUUUCCGAUGGCGCCACUCUGUAUAUUUUUACCCGUUACUC
...-..(((.((...((((((((((((.(((((....((((.....))))..................((.............))))))).))))))..))))))..)).)))....... ( -29.32)
>consensus
UCCGCUGAGCAUUUCAUGUAUAGUGGCUCCACCUUUACGGUCUACUUCCGAACUACUUUUCUGUAAGCGGCCGACUUUAGUUUCCGAUGGCGCCACUAUAUACAUUU_____________
................(((((((((((.(((......(((.......))).................(((..(((....))).))).))).))))))))))).................. (-23.58 = -23.37 +  -0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:21 2006