Locus 2993

Sequence ID 3L_DroMel_CAF1
Location 8,606,286 – 8,606,378
Length 92
Max. P 0.940062
window4676

overview

Window 6

Location 8,606,286 – 8,606,378
Length 92
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 69.93
Mean single sequence MFE -23.33
Consensus MFE -14.55
Energy contribution -16.22
Covariance contribution 1.67
Combinations/Pair 1.15
Mean z-score -1.62
Structure conservation index 0.62
SVM decision value 1.31
SVM RNA-class probability 0.940062
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8606286 92 - 23771897
AAGGCCCUGCAGCUGGAGGGCAAGGAUGCGGUGGAGGCCAAGGAAAAGCAAGGUAAACCUUCGUUUCUUUAGUAU-AUA-----------------------AAGAUAAAUUUAUA
...(((((.(....).)))))....(((((((....)))(((((((.(.((((....))))).))))))).))))-(((-----------------------((......))))). ( -24.70)
>DroSec_CAF1 5917 92 - 1
AAGGCCCUGCAACUGGAGGGAAAGGAUGCGGUGGAGGCCAAAGAAAAGCAAGGUAAACCUUCGAUUCUUUAGUAU-AUA-----------------------AAGAUAAAUGUAUA
..(((((((((.((........))..)))))....))))((((((..(.((((....)))))..)))))).((((-((.-----------------------.......)))))). ( -22.90)
>DroSim_CAF1 5945 92 - 1
AAGGCCCUGCAACUGGAGGGCAAGGAUGCGGUGGAGGCCAAGGAAAAGCAAGGUAAACCUUCGUUUCUUUAGUAU-AUA-----------------------AAGAUGAAUGUAUA
...(((((.(....).)))))(((((.((((.((..(((............)))...)).)))).))))).((((-((.-----------------------.......)))))). ( -24.70)
>DroEre_CAF1 5825 114 - 1
AAGGCCCUGCAACUGGAGGGCAAGGAUGCGGAGCAGGCCAAGGCUAAGCAAGGUAGACCAUUAU-UCCUCAGUAU-AUACAUAGAUAAAUCAAUCUUAAAACAAAAUGCUUGUAUA
...(((((.(....).))))).(((((((..(((........)))..))).((....)).....-))))..((((-(..(((((((......)))).........)))..))))). ( -26.20)
>DroYak_CAF1 6015 104 - 1
AAGGCCCUGCAGCUGGAGGGCAAGGAUGCGGAGGAGGCCAGGGAAAAGCAAGGUAAGCCAUUGU-ACCUUAGUAU-----------UAAUCAAUCUGGAGACUAAAUGUUUGUGUA
...(((((.(....).)))))((((.(((((.((..(((..(......)..)))...)).))))-))))).....-----------..........(.((((.....)))).)... ( -25.80)
>DroAna_CAF1 5992 87 - 1
AAGGCCCUGGAACUUGAUGGCAAGGACAAAGAGGAGGCCAAAGAAAAGCAGGGUAAG------AAUAUUUAAGACAACU-----------------------AAGAAUAAUCCCUA
..((((((.(..((((....))))..).....)).))))..........((((....------..(((((.........-----------------------..)))))..)))). ( -15.70)
>consensus
AAGGCCCUGCAACUGGAGGGCAAGGAUGCGGAGGAGGCCAAGGAAAAGCAAGGUAAACCUUCGUUUCUUUAGUAU_AUA_______________________AAGAUGAAUGUAUA
...(((((.(....).)))))(((((.((((.((..(((............)))...)).)))).))))).............................................. (-14.55 = -16.22 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:59 2006