Locus 1004

Sequence ID 3L_DroMel_CAF1
Location 2,981,935 – 2,982,033
Length 98
Max. P 0.647207
window1554

overview

Window 4

Location 2,981,935 – 2,982,033
Length 98
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 87.30
Mean single sequence MFE -27.54
Consensus MFE -22.41
Energy contribution -22.72
Covariance contribution 0.31
Combinations/Pair 1.17
Mean z-score -2.00
Structure conservation index 0.81
SVM decision value 0.24
SVM RNA-class probability 0.647207
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2981935 98 - 23771897
CAGCAAAUAAAUAACGCGUUUGCUGUUAUAAAUCCUCCAUGCGAUUCCAUGUCCUUUGUGU---UGCUGCAAAUGGCGGCCAUUUGCAUAAAU----------GAGGGACG
((((((((.........)))))))).....(((((.....).))))....((((((..(.(---((.(((((((((...))))))))))))).----------.)))))). ( -29.20)
>DroSec_CAF1 16047 98 - 1
CAGCAAAUAAAUAACGCAUUUUCUGUUAUAAAUCCACCAUGCGAUUCCAUGUCCUUUGUGC---UGCUGCAAAUGGCGGCCAUUUGCAUAAAU----------GAGGGACG
..............(((((...................))))).......((((((..(..---((.(((((((((...))))))))))).).----------.)))))). ( -25.01)
>DroSim_CAF1 16368 98 - 1
CAGCAAAUAAAUAACGCAUUUGCUGUUAUAAAUCCUCCAUGCGAUUCCAUGUCCUUUGUGC---UGCUGCAAAUGGCGGCCAUUUGCAUAAAU----------GAGGGACG
((((((((.........)))))))).....(((((.....).))))....((((((..(..---((.(((((((((...))))))))))).).----------.)))))). ( -28.80)
>DroEre_CAF1 18432 98 - 1
CAGCAAAUAAAUAAGGCAUUUGCUAUUAUAAAUCCUCCAUGCGACUUCAUGUCCUUUGUGC---UGCUGCAAAUGGCGGCCAUUUGCAUAAAU----------GAGGGACC
.(((((((.........)))))))........(((((.(((((((.....)))...((.((---((((......))))))))...))))....----------)))))... ( -26.20)
>DroYak_CAF1 16318 98 - 1
CAGCAAAUAAAUAACGCAUUUGCUGUUAUAAAUCCUCCAUGCGACUCCAUGUCCUUUGUGC---UGCUGCAAAUGGCGGCCAUUUGCAUAAAU----------GAGGGACC
((((((((.........)))))))).......(((((.(((((((.....)))...((.((---((((......))))))))...))))....----------)))))... ( -28.40)
>DroAna_CAF1 14592 111 - 1
CGGCAUAUAAAUAACCUAUUUGACGUUAUAAAUCCUCCAUGCGAGUUCAUGUCCUUUGUGUUUCUGCAGCAAAUAGCUGCCAUUUGCAUAAUGGAAACUGCCUGGAAGACG
..........(((((.........)))))...((.((((.((.((((....(((.((((((....(((((.....))))).....)))))).))))))))).)))).)).. ( -27.60)
>consensus
CAGCAAAUAAAUAACGCAUUUGCUGUUAUAAAUCCUCCAUGCGAUUCCAUGUCCUUUGUGC___UGCUGCAAAUGGCGGCCAUUUGCAUAAAU__________GAGGGACG
((((((((.........)))))))).......(((((((((......))))...(((((((....(((((.....))))).....)))))))...........)))))... (-22.41 = -22.72 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:39 2006