Locus 1620

Sequence ID 3R_DroMel_CAF1
Location 4,690,229 – 4,690,319
Length 90
Max. P 0.565212
window2669

overview

Window 9

Location 4,690,229 – 4,690,319
Length 90
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 80.20
Mean single sequence MFE -18.50
Consensus MFE -11.22
Energy contribution -11.47
Covariance contribution 0.25
Combinations/Pair 1.23
Mean z-score -1.61
Structure conservation index 0.61
SVM decision value 0.06
SVM RNA-class probability 0.565212
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4690229 90 - 27905053
AAACCUUUUCAUUCUU-GGUUU-UUUCCC--CCAAACAUCUGCCCCAUUUCACAAUU-UACGCUUUUAAGGGGUGUAUUUGUUUGGCUUAAGCCC
................-(((((-......--(((((((..((((((...........-...........))))))....)))))))...))))). ( -18.25)
>DroSec_CAF1 39680 90 - 1
AAACCUUUUCAUUCUU-GGUUU-UUUCCC--GCAAACAUCUGCCCCAUUCCACAAUUUUACG-UUUUAGGGGGUGUAUUUGUUUGGCCUAAGCCC
................-(((((-...((.--(((((.((..(((((.....((........)-).....))))))).)))))..))...))))). ( -17.10)
>DroSim_CAF1 43031 92 - 1
AAACCUUUUUAUUCUU-GGUUUUUUUCCC--GCAAACAUCUGCCCCAUUCCAAAAUUUUACGCUUUUAGGGGGUGUAUUUGUUUGGCUUAAGCCC
(((((...........-))))).......--..(((((..((((((...((((((........)))).))))).)))..)))))(((....))). ( -16.50)
>DroEre_CAF1 42769 89 - 1
AAACUUGUUCAUUCUU-UGUUU-UC-CCC--CUAAACAUCCGCCCCAGUCCACAAUC-AAAGCUUUUAGGGGGUGUAUUUGUUUGGCUUAAGCCC
................-.((((-..-...--(((((((..((((((...........-...........))))))....)))))))...)))).. ( -15.55)
>DroYak_CAF1 41767 90 - 1
GAACUUUUCCAUUCUU-UGUUU-UCGCCC--CUAAACAUCUGCCCCAGUCCACAAUG-AACGCUUUUAGGGGGUGUAUUUGUUUGGCUUAAGCCC
................-.((((-..(((.--..(((((..((((((.((.(.....)-.)).((....))))).)))..))))))))..)))).. ( -15.80)
>DroPer_CAF1 49877 87 - 1
AAACCUUAA--CCCUUUGGUUA-CUGCCCUUCCAUCCAUCCCUCCCAUCCCAC-----UGCCCAUUUAGGGGGUGUAUUUGUUUGGAUUAGGGCC
......(((--((....)))))-..(((((...(((((..(....((((((.(-----((......))))))))).....)..))))).))))). ( -27.80)
>consensus
AAACCUUUUCAUUCUU_GGUUU_UUUCCC__CCAAACAUCUGCCCCAUUCCACAAUU_UACGCUUUUAGGGGGUGUAUUUGUUUGGCUUAAGCCC
...............................(((((((..((((((.......................))))))....)))))))......... (-11.22 = -11.47 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:02 2006