Locus 1960

Sequence ID 2R_DroMel_CAF1
Location 7,407,890 – 7,407,990
Length 100
Max. P 0.526102
window3240

overview

Window 0

Location 7,407,890 – 7,407,990
Length 100
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 74.93
Mean single sequence MFE -34.98
Consensus MFE -14.92
Energy contribution -15.04
Covariance contribution 0.12
Combinations/Pair 1.25
Mean z-score -1.75
Structure conservation index 0.43
SVM decision value -0.01
SVM RNA-class probability 0.526102
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7407890 100 + 20766785
AAUAAAAUGAAGUGCUUCAUUCGCGCGUAGUGGAAACACCGCAGUGAGAACACGGUUUCUG-----------CUCUUUUGACAGUUGCGUAGCUUCGGUCACACCAUGUGU
.......((((....))))((((((((..(((....)))))).))))).(((((((..(((-----------.((....)))))..))((..(....)..))....))))) ( -28.00)
>DroSec_CAF1 24344 100 + 1
AAUAAAGUGAAGUGCUUCAUUCAUGCGUAGUGGAGACACCGUAGUGGGAACAGUGUUUCUG-----------CUCGUUUGACAGUUGCGCAGCUUCGGUCACACCAAUUGU
......((((.((((.....(((.(((.((..(((((((.((.......)).)))))))..-----------))))).))).....))))..(....)))))......... ( -31.20)
>DroSim_CAF1 15757 100 + 1
GAUAAAGUGAAGUGCUUCUUUCAGGCGUAGUGGAAACACCGUAGUGGGAACAGUGUUUCUG-----------CUCGUUUGACAGUUGAGCAGCUUCGGUCACACCAAUUGU
........(((((((((((.(((((((.((..(((((((.((.......)).)))))))..-----------))))))))).))..))))).))))((.....))...... ( -35.80)
>DroEre_CAF1 24002 106 + 1
AGU-----GGAGCGCCUCGUUUGAGUGCAGUGGAAACACCGCAGUCGGAACACUGUUUCUGCGAUAGUAUCGCUUUUCUGACAGCUGCGCAGCUGCGGUCACACCGCGUGU
(((-----...((((...((((((.(((.(((....))).))).)).)))).(((((...(((((...)))))......)))))..)))).)))((((.....)))).... ( -39.50)
>DroYak_CAF1 22425 111 + 1
UGUAAAAAAGAUUGCAUUUCUUGCGUGCAGUGGAAACACCGCAGUGGGAACACUGUUACUGCGAUAGUAUCGCUCUUUUGACAGCUGCGCCGCUGCGGUCACACCGCGUGU
((((...((((.......))))...))))((((....((((((((((...((((((((..(((((...))))).....)))))).))..))))))))))....)))).... ( -40.40)
>consensus
AAUAAAAUGAAGUGCUUCAUUCGCGCGUAGUGGAAACACCGCAGUGGGAACACUGUUUCUG___________CUCUUUUGACAGUUGCGCAGCUUCGGUCACACCAAGUGU
........................((((((((....))).((((((....)))))).............................)))))......((.....))...... (-14.92 = -15.04 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:24 2006