Locus 5633

Sequence ID 2R_DroMel_CAF1
Location 17,932,091 – 17,932,211
Length 120
Max. P 0.633979
window9028

overview

Window 8

Location 17,932,091 – 17,932,211
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 73.33
Mean single sequence MFE -29.59
Consensus MFE -15.55
Energy contribution -14.33
Covariance contribution -1.21
Combinations/Pair 1.64
Mean z-score -1.60
Structure conservation index 0.53
SVM decision value 0.21
SVM RNA-class probability 0.633979
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17932091 120 - 20766785
UUCUCUUAGCUUGGCUUCUUUAUCUUCGAGCUGUUUUAGCUCACGGUUAUCCUUCAAAUCCCGUUCAACGGUCUGCUGAUUGGAGCACUCUGUUUUAAUUGUUUCCAGCUCAUCAGUUUU
.......((((.((.............((((((...))))))((((...(((.(((.(..(((.....)))..)..)))..))).....))))...........)))))).......... ( -22.60)
>DroVir_CAF1 4735 120 - 1
UUCGCUUAGUUCGGCUUCCUUUAACUGCAGCUGCUUCAACUCGCGAUUGUCCUUCAGAUCGCGCUCCAGGCUCUGUUGAUUGAGGCACUCGGUCUUGAGUGUUUCCAGCUGCUCGCUCUU
...(((......)))...........(((((((..(((((..((((((........))))))((.....))...)))))..((((((((((....)))))))))))))))))........ ( -39.00)
>DroGri_CAF1 3692 120 - 1
UUCACUGAGUUUGCUUUGCUUCUGCUGCAGCUGCUUCAGCUCACGAUUAUCUUUAAGAUCGCGCUCCAGUGUCUCCUGAUUGAGGCAUUCUGUUUUAACAGAUUCCAGUUUCUCACUAGU
.....((((...(((.((((((.((((.(((.((....))...(((((........))))).))).))))(((....))).)))))).(((((....)))))....)))..))))..... ( -28.40)
>DroYak_CAF1 3358 120 - 1
UUCUCUUAACUUGGAUUCCUUAUCUUCGAGCUGUUUCAGCUCGCGGUUAUCCUUUAAAUCCCGUUCAACGGUCUGUUGAUUUGAGCACUCUGUUUUAAUUGUAUCCAGCUCGUCAGUUUU
.......((((.((((.....)))).(((((((.....((((((((..............))))(((((.....)))))...))))((............))...)))))))..)))).. ( -22.94)
>DroAna_CAF1 3373 120 - 1
UUCGCUUAGCUUGGAUUCCUUCUCCUGCAGUUGCUUCAGCUCGCGAUUAUCCUUCAAGUCUCGCUCCACGUUCUGCUGGUUGCGACACUCCGUCUUAAUGGACUCCACUUGCCCAGUCUU
...(((..((.((((.(((......((((((((...))))).)))((((.......(((.((((.(((.(.....))))..)))).)))......))))))).))))...))..)))... ( -26.62)
>DroPer_CAF1 3536 120 - 1
UUUUCUCAGCUCUGUUUCGUUAUCCUGCAGCUGCUUAAGCUCGCGAUUGUCUUUCAGGUCGCGCUCAACGGUCUGCUGAUUAAGACACUCGGUGUUUACGCUUUCCAGUUGCAGGGUUUU
.....................((((((((((((...((((...(((.((((((.(((..((.......))..)))......)))))).)))((....))))))..))))))))))))... ( -38.00)
>consensus
UUCUCUUAGCUUGGAUUCCUUAUCCUGCAGCUGCUUCAGCUCGCGAUUAUCCUUCAAAUCGCGCUCAACGGUCUGCUGAUUGAGGCACUCUGUUUUAAUUGUUUCCAGCUGCUCAGUUUU
..........................(((((((..(((((.((.((((........)))).))...........)))))(((((((.....))))))).......)))))))........ (-15.55 = -14.33 +  -1.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:32 2006