Locus 3077

Sequence ID 3R_DroMel_CAF1
Location 8,116,007 – 8,116,122
Length 115
Max. P 0.555041
window4995

overview

Window 5

Location 8,116,007 – 8,116,122
Length 115
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 74.51
Mean single sequence MFE -20.45
Consensus MFE -17.28
Energy contribution -17.00
Covariance contribution -0.28
Combinations/Pair 1.10
Mean z-score -0.46
Structure conservation index 0.84
SVM decision value 0.04
SVM RNA-class probability 0.555041
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8116007 115 + 27905053
GAUCAACACCAUCGCAAUCAAUGUCAAUAUUGUCGAUUGAAGAAGUGCCUCAAAAUGGGCAUGAGACGCGAAGGUAAGCAUCAUCAACAUGAUCAUCAUCUCACCAUCAACAUUC
(((((..(((.((((..((((((.((....)).).)))))....((((((......)))))).....)))).)))..(......)....)))))..................... ( -23.50)
>DroVir_CAF1 50552 88 + 1
GAUCAACAUCAUCGCAAUCAAUGCCAAUAUUGCCGUUUGAAAAAGUGCCUCAAAAUGGGCAUGCGACGCGAAGGUAAGUCCUC-----CCA-CC---------------------
.......(((.((((..((((.((.......))...))))....((((((......)))))).....)))).)))........-----...-..--------------------- ( -16.90)
>DroGri_CAF1 69341 106 + 1
GAUCAACAUCAUCGCAAUCAAUGCCAAUAUUGCCGUUUGAAAAAGUGCCUCAAGAUGGGCAUGCGACGCGAAGGUAAGUCUCUUGUCCCCA-CCGAU--U------UCCCCGUUG
...((((....((((..((((.((.......))...))))....((((((......)))))).....)))).((.(((((...........-..)))--)------).)).)))) ( -21.02)
>DroWil_CAF1 32995 98 + 1
GAUCAACAUCAUCGCAAUCAAUGCCAAUAUUGCCGCUUGAAAAAGUGCCUCAAAAUGGGCAUGAGACGUGAAGGUAAGUUUCAU-AUCAAUUUAAUU--UU--------------
((.....(((.((((..(((.((((.((.(((.(((((....)))))...))).)).)))))))...)))).))).....))..-............--..-------------- ( -20.50)
>DroYak_CAF1 8757 98 + 1
GAUCAGCAUCAUCGCAAUCAAUGUCAAUAUUGCCGAUUGAAGAAGUGCCUCAAAAUGGGCAUGAGACGCGAAGGUAAGCAUCAUCAUCA-----------------UCACCAUUC
(((..(((((.((((..((....(((((.......)))))....((((((......))))))))...)))).)))..))...)))....-----------------......... ( -19.00)
>DroMoj_CAF1 67670 88 + 1
GAUCAGCAUCAUCGCAAUCAAUGCCAAUAUUGCCGCUUGAAAAAGUGCCUCAAAAUGGGCAUGCGACGCGAAGGUAAGUCCAU-----CCU-AU---------------------
(((..(((((.((((..((.(((((.((.(((.(((((....)))))...))).)).)))))..)).)))).)))..))..))-----)..-..--------------------- ( -21.80)
>consensus
GAUCAACAUCAUCGCAAUCAAUGCCAAUAUUGCCGAUUGAAAAAGUGCCUCAAAAUGGGCAUGAGACGCGAAGGUAAGUCUCAU_A_CACA_CC_____________________
.......(((.((((..((((((.((....)).)).))))....((((((......)))))).....)))).)))........................................ (-17.28 = -17.00 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:31 2006