Locus 6944

Sequence ID 3R_DroMel_CAF1
Location 18,315,604 – 18,315,705
Length 101
Max. P 0.541700
window11264

overview

Window 4

Location 18,315,604 – 18,315,705
Length 101
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 77.34
Mean single sequence MFE -31.87
Consensus MFE -17.93
Energy contribution -19.18
Covariance contribution 1.25
Combinations/Pair 1.19
Mean z-score -1.58
Structure conservation index 0.56
SVM decision value 0.02
SVM RNA-class probability 0.541700
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18315604 101 - 27905053
GAGGUGGCCCAGGAGCGCAUCUGCGAUGAUGAACUUAUCCUCAUCAAGGGCACUAAGGCACGGUAAGUGC---AGA--U-----UAUAUCAUGCAGUAACAUAGUUUGCUU
..((((((((.....(((....))).((((((........)))))).))))......((((.....))))---...--.-----..))))..((((.........)))).. ( -27.70)
>DroVir_CAF1 2637 105 - 1
GAGGUGGCACAGGAGCGCAUCUGCGAUGAUGAGCUCAUUCUCAUUAAGGGCACCAAAGCUCGGUAAGAUGUC--GC--UUAACCGAAAGGCUAAAGUGACC--AUUUCGUA
((((((((((..((((((((((((..(((((((......))))))).((((......)))).)).))))).)--))--))..((....)).....))).))--)))))... ( -41.60)
>DroSec_CAF1 2594 101 - 1
GAGGUGGCCCAAGAACGCAUCUGCGAUGAUGAGCUUAUCCUCAUCAAGGGCACUAAGGCACGGUAAGUGC---AGA--U-----GAUAGCAUGCAGUAACAUAGUUUCCUG
.(((..((((.....(((....))).(((((((......))))))).))))((((.(..((.((..((((---...--.-----....)))))).))..).))))..))). ( -30.40)
>DroEre_CAF1 2602 101 - 1
GAGGUGGCCCAAGAGCGCAUCUGCGACGAUGAGCUUAUCCUCAUCAAGGGCACUAAGGCGCGGUAAGUGC---UGA--U-----GAUGGCAUGCCAUACCAUGGUUUCGUU
..((((.(((....((((....))).)((((((......))))))..)))))))..(((((.....))))---)((--(-----((.(.((((......)))).).))))) ( -33.90)
>DroWil_CAF1 2553 102 - 1
GAGGUAGCACAGGAACGAAUCUGCGAUGAUGAGCUUAUCCUCAUCAAGGGCACAAAGGCUCGGUAAGUAAACCAAACUU-----UCCAUCUUAAAGUAAC----UUUCCUA
..........(((((.(.........(((((((......))))))).((((......))))((.((((.......))))-----.))............)----.))))). ( -21.70)
>DroYak_CAF1 2800 101 - 1
GAGGUGGCCCAAGAGCGCAUCUGCGAUGAUGAGCUUAUCCUCAUCAAGGGCACUAAGGCGCGGUAAGUGC---AGA--U-----GAUAGCUUGCAGUUACAUGGCAACAUU
...(((((....((((.((((((((.(((((((......))))))).(.((......)).)......)))---)))--)-----)...))))...)))))(((....))). ( -35.90)
>consensus
GAGGUGGCCCAAGAGCGCAUCUGCGAUGAUGAGCUUAUCCUCAUCAAGGGCACUAAGGCACGGUAAGUGC___AGA__U_____GAUAGCAUGCAGUAACAU_GUUUCCUU
..(((.((((.....(((....))).(((((((......))))))).)))))))...((((.....))))......................................... (-17.93 = -19.18 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:51 2006