Locus 1439

Sequence ID 2L_DroMel_CAF1
Location 3,830,960 – 3,831,067
Length 107
Max. P 0.559365
window2343

overview

Window 3

Location 3,830,960 – 3,831,067
Length 107
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 89.76
Mean single sequence MFE -34.58
Consensus MFE -26.38
Energy contribution -27.54
Covariance contribution 1.16
Combinations/Pair 1.09
Mean z-score -1.53
Structure conservation index 0.76
SVM decision value 0.05
SVM RNA-class probability 0.559365
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3830960 107 + 22407834
G------GGGUUAAGUUAGCUCCUCAUGUUAUUCUCCAGCUGGAUGUUGCGUCCAUCUGUGCCAAAGAUGCAGAGAUAUUGGGGAAAACGACAGCUUGCAUGAUCAGUUGGCA
.------.......(((((((..((((((..((((((((..(((((...)))))((((.(((.......))).)))).))))))))...........))))))..))))))). ( -32.32)
>DroSec_CAF1 19802 107 + 1
G------GGGUUAAGUUAGCUCCUCAUGUUUUGCUCGAUCUGGAUGUUGGGUCCUUCUGUGCCAAAGAGGCAGAGAUAUUGGGGAAAACGACAGCUUGCAUGAUCAGUUGGCA
.------.......(((((((..((((((...((((......))(((((..(((((((.((((.....)))).))).....))))...)))))))..))))))..))))))). ( -35.40)
>DroSim_CAF1 20916 107 + 1
G------GGGUUAAGUUAGCUCCUCAUGCUUUGCUCGAUCUGGAUGUUGGGUCCAUCUGUGCCAAAGAGGCAGAGAUAUUGGGGAAAACGACAGCUUGCAUGAUCAGUUGGCA
.------.......(((((((..((((((...((((......))(((((..(((((((.((((.....)))).)))).....)))...)))))))..))))))..))))))). ( -36.50)
>DroEre_CAF1 24368 106 + 1
G------GGGUUAAGUUAGCUCAUCAUGUUUUUCUUGAUCUGGAUGUUGGGCCCAUCUGUGCCAAAGAUGCAGAGAUAUCGGGGAAA-AGACAGCUCGCAUGAUCAGUUGGCA
.------.......(((((((.((((((((((((((((((((.((.((.(((.(....).))).)).)).))))....)))))))))-.((....))))))))).))))))). ( -33.10)
>DroYak_CAF1 20445 113 + 1
GGGAUUGGGGUUAAGUUAGCUGCUCAUGUUCUUCUUGAUCUGGAUGUUGGGUCCAUCUGUGCCGAAGAUGCAGAGAUAUCUGGGAAAGAGACAGCUUGCAUGAUCAGUUGGCA
..............((((((((.((((((.((((((..((..((((((.....(((((.......)))))....))))))..))...)))).))...)))))).)))))))). ( -35.60)
>consensus
G______GGGUUAAGUUAGCUCCUCAUGUUUUUCUCGAUCUGGAUGUUGGGUCCAUCUGUGCCAAAGAUGCAGAGAUAUUGGGGAAAACGACAGCUUGCAUGAUCAGUUGGCA
..............(((((((..(((((((((((((((...((((.....))))((((.(((.......))).)))).)))))))))..........))))))..))))))). (-26.38 = -27.54 +   1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:40 2006