Locus 2196

Sequence ID 3L_DroMel_CAF1
Location 6,030,764 – 6,030,860
Length 96
Max. P 0.885000
window3401

overview

Window 1

Location 6,030,764 – 6,030,860
Length 96
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 74.46
Mean single sequence MFE -17.87
Consensus MFE -3.77
Energy contribution -4.17
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.89
Structure conservation index 0.21
SVM decision value 0.93
SVM RNA-class probability 0.885000
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6030764 96 - 23771897
AAAGCGUUAAUGAAAUAUAUCUAUCCAGGGAUUUCACAAGAUUUUCCGAACGACAGUGGAUGGAUAU----GUAUUUUCAACUUUUAUUUAUUAUCUUAA
..........((((((((((((((((.((((..((....))..))))..((....))))))))))))----))...)))).................... ( -22.10)
>DroSec_CAF1 84897 91 - 1
AAAG-----AUAAAAGAUCUCUCUCCAGUGAUCGCACAGGAUUUUCCGAACGACAGUGGAUGGAUAU----AUAUUUUCAACUUUUAUUUAUUAUCUUAA
..((-----(((((((.......((((.((.(((....((.....))...))))).))))((((...----.....)))).))))))))).......... ( -19.50)
>DroSim_CAF1 95871 91 - 1
AAAG-----AUAAAAGAUCUCUGUCCAGUGAUCGCACAGGAUUUUCCGAACGACAGUGGAUGGAUAU----GUAUUUUCAACUUUUAUUUAUUAUCUUAA
..((-----(((((((...((((((((.((.(((....((.....))...))))).))))))))..(----(......)).))))))))).......... ( -22.90)
>DroEre_CAF1 87281 72 - 1
------------------------UCAUUGCUCUUACAACAUUUUCCGAACGACAGUGGAUGGAUAU----GUAUUUUCAUCUUUUAUUUAUUAUCUUAA
------------------------.(((((.((..................)))))))((((((...----.....)))))).................. (  -7.77)
>DroYak_CAF1 89996 81 - 1
AAA-------------------UUCCCUUGAAUUUACAUGAUUUUCCGAGCGACAGUGCAUGGAUAUGUAUGUAUUUUCAUCAUUUAUUUAUGGUCUUAA
...-------------------.......(((..((((((....((((.(((....))).))))....))))))..)))(((((......)))))..... ( -17.10)
>consensus
AAAG_____AU_AAA_AU_UCU_UCCAGUGAUCUCACAAGAUUUUCCGAACGACAGUGGAUGGAUAU____GUAUUUUCAACUUUUAUUUAUUAUCUUAA
...................................................((.((((((((((...................)))))))))).)).... ( -3.77 =  -4.17 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:32 2006