Locus 6619

Sequence ID 3R_DroMel_CAF1
Location 17,421,759 – 17,421,850
Length 91
Max. P 0.999952
window10775 window10776

overview

Window 5

Location 17,421,759 – 17,421,850
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 93.63
Mean single sequence MFE -36.24
Consensus MFE -35.36
Energy contribution -35.20
Covariance contribution -0.16
Combinations/Pair 1.12
Mean z-score -2.44
Structure conservation index 0.98
SVM decision value 4.81
SVM RNA-class probability 0.999952
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17421759 91 + 27905053
CAUCGAGACAGAAAGUUUCACGGAGGGGCUCGGAUUGCCGGAAGAUGGAGUGGAAAGUGGGCGGUUUGACGCCCACUCAAGCGCCGUCGGA
..(((((((.....))))).......(((.......))).)).(((((.((....((((((((......))))))))...)).)))))... ( -34.80)
>DroSec_CAF1 25818 91 + 1
CACCGAGACAGAAAGUUUCACGGAGGGGCUCGGAUUGCCGGAAGACGGAGUGGAAAGUGGGCGGUUUAACGCCCACUCAAGCGCCGUUGGA
..(((((((.....))))).......(((.......)))))..(((((.((....((((((((......))))))))...)).)))))... ( -36.30)
>DroSim_CAF1 23202 91 + 1
CACCGAGACAGAAAGUUUCACGGAGGGGCUCGGAUUGCCGGAAGACGGAGUGGAAAGUGGGCGGUUUGACGCCCACUCAAGCGCCGUUGGA
..(((((((.....))))).......(((.......)))))..(((((.((....((((((((......))))))))...)).)))))... ( -36.30)
>DroEre_CAF1 24707 91 + 1
CACCGAGACAGAAAGUUUCACGAAGGGGCUCGGAGUGCCGGAAGACGGAGUGGAAAGUGGGCGGUUUGACGCCCACUCAAGCGCCGUCGUA
..(((((((.....))))).....((.((.....)).))))..(((((.((....((((((((......))))))))...)).)))))... ( -39.10)
>DroYak_CAF1 22913 91 + 1
CACCGAGACAGAAAGUUUCACGAAGGGGCUCGGAUUGCCGGAAGACAGAGAGAAAAGUGGGCGGUUGGACGCCCACUUAAACGCCGUCGUA
....(((((.....)))))((((.((.((((...(((.(....).))).)))..(((((((((......)))))))))...).)).)))). ( -34.70)
>consensus
CACCGAGACAGAAAGUUUCACGGAGGGGCUCGGAUUGCCGGAAGACGGAGUGGAAAGUGGGCGGUUUGACGCCCACUCAAGCGCCGUCGGA
..(((((((.....))))).......(((.......)))))..(((((.((....((((((((......))))))))...)).)))))... (-35.36 = -35.20 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 17,421,759 – 17,421,850
Length 91
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 93.63
Mean single sequence MFE -28.52
Consensus MFE -26.16
Energy contribution -26.64
Covariance contribution 0.48
Combinations/Pair 1.08
Mean z-score -1.63
Structure conservation index 0.92
SVM decision value 1.88
SVM RNA-class probability 0.981324
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17421759 91 - 27905053
UCCGACGGCGCUUGAGUGGGCGUCAAACCGCCCACUUUCCACUCCAUCUUCCGGCAAUCCGAGCCCCUCCGUGAAACUUUCUGUCUCGAUG
...((.((.(((((((((((((......)))))))).......((.......)).....))))))).))..(((.((.....)).)))... ( -25.20)
>DroSec_CAF1 25818 91 - 1
UCCAACGGCGCUUGAGUGGGCGUUAAACCGCCCACUUUCCACUCCGUCUUCCGGCAAUCCGAGCCCCUCCGUGAAACUUUCUGUCUCGGUG
.((.((((.(((((((((((((......)))))))).........(((....)))....)))))....))))((.((.....)).)))).. ( -28.70)
>DroSim_CAF1 23202 91 - 1
UCCAACGGCGCUUGAGUGGGCGUCAAACCGCCCACUUUCCACUCCGUCUUCCGGCAAUCCGAGCCCCUCCGUGAAACUUUCUGUCUCGGUG
.((.((((.(((((((((((((......)))))))).........(((....)))....)))))....))))((.((.....)).)))).. ( -28.70)
>DroEre_CAF1 24707 91 - 1
UACGACGGCGCUUGAGUGGGCGUCAAACCGCCCACUUUCCACUCCGUCUUCCGGCACUCCGAGCCCCUUCGUGAAACUUUCUGUCUCGGUG
.((((.((.(((((((((((((......)))))))).........(((....)))....))))).)).))))((.((.....)).)).... ( -31.30)
>DroYak_CAF1 22913 91 - 1
UACGACGGCGUUUAAGUGGGCGUCCAACCGCCCACUUUUCUCUCUGUCUUCCGGCAAUCCGAGCCCCUUCGUGAAACUUUCUGUCUCGGUG
...(((((.(...(((((((((......)))))))))....).)))))..(((((.......))).......((.((.....)).)))).. ( -28.70)
>consensus
UCCGACGGCGCUUGAGUGGGCGUCAAACCGCCCACUUUCCACUCCGUCUUCCGGCAAUCCGAGCCCCUCCGUGAAACUUUCUGUCUCGGUG
...(((((.(...(((((((((......)))))))))....).)))))..(((((.......))).......((.((.....)).)))).. (-26.16 = -26.64 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:03 2006