Locus 9553

Sequence ID 3R_DroMel_CAF1
Location 25,242,110 – 25,242,207
Length 97
Max. P 0.591863
window15278

overview

Window 8

Location 25,242,110 – 25,242,207
Length 97
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 83.39
Mean single sequence MFE -14.64
Consensus MFE -9.96
Energy contribution -9.84
Covariance contribution -0.12
Combinations/Pair 1.13
Mean z-score -1.72
Structure conservation index 0.68
SVM decision value 0.12
SVM RNA-class probability 0.591863
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25242110 97 - 27905053
CAGUGCUCACAGUUUGUGCUCCAUGCUCCAUCCUUCCUCCCCCAAAAUACAUAUAUGUAUAUACUUGGAUGUAUGUGCAUAUAUCUAAAGUCCACCA
..(((..(..((..((.((.....))..))..)).............((.((((((((((((((......)))))))))))))).))..)..))).. ( -20.10)
>DroSec_CAF1 99360 93 - 1
CAGUGCUCACAGUUUGUACUCCAUGCUCCGUCCUCCCUCCCCCAAAAUACAUAUAU--AU--ACUUGGAUGUAUAUGCAUAUAUCUAAAGUCCCCCA
.(((((.........)))))....................................--..--..((((((((((....))))))))))......... ( -10.70)
>DroSim_CAF1 100965 95 - 1
CAGUGCUCACAGUUUGUGCUCCAUGCUCCAUCCUCCCUCCCCCAAAAUACAUAUAU--AUAGACUUGGAUGUAUGUGCAUAUAUCUAAAGUCCCCCA
.((..(.........)..))....................................--...(((((((((((((....)))))))).)))))..... ( -14.30)
>DroEre_CAF1 107836 78 - 1
CAGUGCUCACAGUUUGUGCUCCAUGCUC-----------CCCCAAAGUACAUAUAU--------UUGGAUGUAUGUACAUAUAUCUAAAGUCCCCCA
..(((((..........((.....))..-----------......))))).....(--------((((((((((....)))))))))))........ ( -14.77)
>DroYak_CAF1 103447 86 - 1
CACUGCUCACAGUUUGUGCUCCAUGCACCACCA---CCCCCCAAAAGCACAUAUAU--------UCGGAUAUAUGUACAUAUAUCUAAAGUCCCCCA
.((((....)))).((((((.............---.........)))))).....--------..((((((((....))))))))........... ( -13.35)
>consensus
CAGUGCUCACAGUUUGUGCUCCAUGCUCCAUCCU_CCUCCCCCAAAAUACAUAUAU__AU__ACUUGGAUGUAUGUGCAUAUAUCUAAAGUCCCCCA
....((....(((....)))....))......................................((((((((((....))))))))))......... ( -9.96 =  -9.84 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:37:01 2006