Locus 7332

Sequence ID 3R_DroMel_CAF1
Location 19,383,991 – 19,384,086
Length 95
Max. P 0.883043
window11859

overview

Window 9

Location 19,383,991 – 19,384,086
Length 95
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 73.11
Mean single sequence MFE -20.34
Consensus MFE -2.12
Energy contribution -1.92
Covariance contribution -0.20
Combinations/Pair 1.18
Mean z-score -1.83
Structure conservation index 0.10
SVM decision value 0.93
SVM RNA-class probability 0.883043
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19383991 95 - 27905053
AAAUGAUUGAACAAGUGUUAAA-------AAUAUUUUAU--------AGGUAAUCAUUUUUCUCAUGUUACUGAAAGUUGCAAGACUAGCGAACAUAUUUCAGUAAUUUA
(((((((((...((((((....-------.))))))...--------...))))))))).......((((((((((.((((.......)))).....))))))))))... ( -18.30)
>DroSec_CAF1 33905 96 - 1
AAAUGAUUGAAUUGAUGUUAAA------UAAUAUUUUAC--------AGGCAAUCAUUUUUACCAUGUUACCAAAAGUUGCAAGACUAGUGAACAUAUUUCAGUAAUUUA
(((((((((....((((((...------.))))))....--------...))))))))).....(((((..((..((((....))))..))))))).............. ( -13.60)
>DroSim_CAF1 39928 96 - 1
AAAUGAUUGAACUGAUGUUAAA------UAAUAUUUUAU--------AGGCAAUCAUUUGUACCAUGUUACCGAAAGUUGCAAGACUAGUGAACAUAUUUCAGUAAUUUA
(((((((((....((((((...------.))))))....--------...))))))))).......(((((.((((.(..(.......)..).....)))).)))))... ( -15.00)
>DroEre_CAF1 38390 98 - 1
AAAUGCUAGAAAUAAUGUUACACAUACCCAAUGUCCUAC--------AGAGAAUCGUCUUGCCUAUG----CGAAAGUUGCAAGAUGAGGGCAACUAUUUCAGUAAUUUA
...((((.(((((((((.....)))......(((((...--------......(((((((((....(----(....)).))))))))))))))..))))))))))..... ( -26.50)
>DroYak_CAF1 38221 110 - 1
AAAUAAUUGAAAUAAUGAUGCAAACAGCCAAUGUUCUAUAGGAAUAUAGGGAAUAUGUUUGCCUAUGUUGCCGAAAGUUGCAGGAUGAGUGAAAAUAUUCCUGUAAUUUA
......(((.((((.....(((((((.((.((((((.....))))))..))....)))))))...))))..)))(((((((((((...((....))..))))))))))). ( -28.30)
>consensus
AAAUGAUUGAAAUAAUGUUAAA______CAAUAUUUUAU________AGGCAAUCAUUUUUCCCAUGUUACCGAAAGUUGCAAGACUAGUGAACAUAUUUCAGUAAUUUA
..........................................................................(((((((..((...((....))..))..))))))). ( -2.12 =  -1.92 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:20 2006