Locus 877

Sequence ID 3L_DroMel_CAF1
Location 2,663,904 – 2,664,007
Length 103
Max. P 0.544060
window1349

overview

Window 9

Location 2,663,904 – 2,664,007
Length 103
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 86.09
Mean single sequence MFE -25.93
Consensus MFE -20.67
Energy contribution -21.29
Covariance contribution 0.62
Combinations/Pair 1.05
Mean z-score -1.43
Structure conservation index 0.80
SVM decision value 0.02
SVM RNA-class probability 0.544060
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2663904 103 + 23771897
---CCUUUUUUUUCCUCCCACAUUCAAUGGCUGCACUGGCGGAAGCUGCCGCCAUUGUAAUUAAGUCAGUGCACAGAGAAAAA----------CCACCGAAAAGUGUCAACAAUUC
---...((((((((....(((((((((((((.(((...((....))))).))))))).))).......)))....))))))))----------.(((......))).......... ( -23.71)
>DroSim_CAF1 23441 102 + 1
---CCUUUU-UUUCCUCCCACAGUCAAUGGCUGCCCUGGCGGAAGCUGCCGCCAUUGUAAUUAAGUCAGUGCACGGAGAAAAA----------CCACCGAAAACUGUCAACAAUUC
---......-..............(((((((.((...(((....))))).))))))).......(.((((...(((.(.....----------.).)))...)))).)........ ( -26.80)
>DroEre_CAF1 25039 100 + 1
---CCUUUU-UUUCCACCCGUAUUCAAUGGCUGC-CUGGCGGAAGCUGCCGCCAUUGUAAUUAAGUCAGUGCACGGAGAAAAA----------CCACUGC-AACUAUCAACAAUUC
---..((((-(((((....((((((((((((.((-..(((....))))).)))))))..........)))))..)))))))))----------.......-............... ( -26.10)
>DroYak_CAF1 23785 115 + 1
ACCCAUUUU-UUUCUUCCCGUAUUCAAUGGCUGCCCUGGCGGAAGCUGCCGCCAUUGUAAUUAAGUCAGUGCACGGAGAAAAACUGAGAAAAACCGCCGAAAACUGUCAACAUUUC
.....((((-(((((((((((...(((((((.((...(((....))))).))))))).......((....)))))).))).....))))))))....................... ( -27.10)
>consensus
___CCUUUU_UUUCCUCCCACAUUCAAUGGCUGCCCUGGCGGAAGCUGCCGCCAUUGUAAUUAAGUCAGUGCACGGAGAAAAA__________CCACCGAAAACUGUCAACAAUUC
........................(((((((.((...(((....))))).))))))).......(.((((...(((.(................).)))...)))).)........ (-20.67 = -21.29 +   0.62) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:23 2006