Locus 6212

Sequence ID 3L_DroMel_CAF1
Location 16,511,918 – 16,512,054
Length 136
Max. P 0.826309
window9967 window9968

overview

Window 7

Location 16,511,918 – 16,512,026
Length 108
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 79.69
Mean single sequence MFE -14.62
Consensus MFE -8.74
Energy contribution -9.05
Covariance contribution 0.31
Combinations/Pair 1.06
Mean z-score -2.04
Structure conservation index 0.60
SVM decision value 0.53
SVM RNA-class probability 0.770500
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16511918 108 - 23771897
CCAAGUGUGAAGUAUUUUUAGAAGUUUGUCCCAUCUUCUUAUUUACUUGCUAUAUUAGCAUACUUUUUACAAUCUU-AUCGGCAUAUGUGCCAAAUUAUUUUAUACUCU
...(((((((((((.(((.(((((..........)))))........(((((...)))))................-...((((....))))))).))))))))))).. ( -19.70)
>DroSec_CAF1 117974 92 - 1
CCAACUGUGAAGUAUUUUUAGAAGUUUGUCCCAUCUUCUUAUUUACUUGCUAUAUUAGCAUACAUUUCACACUCUU-----------------AAUUAUUCAAUACUCU
.....(((((((((.....(((((..........)))))....))).(((((...))))).....)))))).....-----------------................ ( -13.20)
>DroSim_CAF1 127945 92 - 1
CCAACUGUGAAGUAUUUUUAGAAGUAUGUCCCAUCUUCUUAUUUACUUGCUAUAUUAGCAUACAUUUCACACUCUA-----------------AGUUAUUCAAUACUCU
.....(((((((((.....(((((.(((...))))))))....))).(((((...))))).....)))))).....-----------------................ ( -14.30)
>DroYak_CAF1 125116 109 - 1
CCAAAGGUGAAAUAUUUUUAAAAGUUUGCCCCAUCUUCUUAUUUACUUGCUAUUUUAGCAUUCUUGACACACUCUUUAUCGGCAAAUGAGUCAAAUUAUUAAAUAUUCU
..........((((.(((.....(((((((.................(((((...))))).....((.....))......))))))).....))).))))......... ( -11.30)
>consensus
CCAACUGUGAAGUAUUUUUAGAAGUUUGUCCCAUCUUCUUAUUUACUUGCUAUAUUAGCAUACAUUUCACACUCUU_________________AAUUAUUCAAUACUCU
......((((((((.....(((((..........)))))....)))))((((...))))........)))....................................... ( -8.74 =  -9.05 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 16,511,952 – 16,512,054
Length 102
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 90.03
Mean single sequence MFE -18.90
Consensus MFE -13.66
Energy contribution -14.22
Covariance contribution 0.56
Combinations/Pair 1.08
Mean z-score -2.51
Structure conservation index 0.72
SVM decision value 0.70
SVM RNA-class probability 0.826309
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16511952 102 - 23771897
UACUGGUUUGAAUAAUAUUAAUUCCUAGCCAAGUGUGAAGUAUUUUUAGAAGUUUGUCCCAUCUUCUUAUUUACUUGCUAUAUUAGCAUACUUUUUACAAUC
...(((((.((((.......))))..))))).(((.((((((.....(((((..........)))))........(((((...))))))))))).))).... ( -18.10)
>DroSec_CAF1 117992 102 - 1
UACUGGCUUGAAUAAUAUUAAUUCCUAGCCAACUGUGAAGUAUUUUUAGAAGUUUGUCCCAUCUUCUUAUUUACUUGCUAUAUUAGCAUACAUUUCACACUC
...(((((.((((.......))))..)))))..(((((((((.....(((((..........)))))....))).(((((...))))).....))))))... ( -21.40)
>DroSim_CAF1 127963 102 - 1
UACUGGCUUGAAUAAUAUUAAUUCCUAGCCAACUGUGAAGUAUUUUUAGAAGUAUGUCCCAUCUUCUUAUUUACUUGCUAUAUUAGCAUACAUUUCACACUC
...(((((.((((.......))))..)))))..(((((((((.....(((((.(((...))))))))....))).(((((...))))).....))))))... ( -22.50)
>DroYak_CAF1 125151 102 - 1
UAUUGGUUUUAAGAUUAUUAAUUCUUAGCCAAAGGUGAAAUAUUUUUAAAAGUUUGCCCCAUCUUCUUAUUUACUUGCUAUUUUAGCAUUCUUGACACACUC
..(((((..(((((........)))))))))).((..((...((.....)).))..)).................(((((...))))).............. ( -13.60)
>consensus
UACUGGCUUGAAUAAUAUUAAUUCCUAGCCAACUGUGAAGUAUUUUUAGAAGUUUGUCCCAUCUUCUUAUUUACUUGCUAUAUUAGCAUACAUUUCACACUC
...(((((.((((.......))))..)))))...((((((((.....(((((..........)))))....)))))((((...))))........))).... (-13.66 = -14.22 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:50 2006