Locus 1068

Sequence ID 2R_DroMel_CAF1
Location 4,352,036 – 4,352,138
Length 102
Max. P 0.681195
window1884

overview

Window 4

Location 4,352,036 – 4,352,138
Length 102
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 77.65
Mean single sequence MFE -37.77
Consensus MFE -20.65
Energy contribution -22.66
Covariance contribution 2.01
Combinations/Pair 1.23
Mean z-score -1.80
Structure conservation index 0.55
SVM decision value 0.31
SVM RNA-class probability 0.681195
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4352036 102 + 20766785
GG-CGAUAGCAGCUGAGUGGCAGGGCAAUGUCCACUUACCAUUGCCCAUUUACCUAUCGCCAUCAG----CAGGAACAUGGCUAACGUGGCU---------GACAUGGGGGCCACA
((-((((((..(((....))).((((((((.........))))))))......)))))))).....----........(((((..((((...---------..))))..))))).. ( -42.80)
>DroSec_CAF1 22603 102 + 1
GG-CGAUAGCAGCUGAGUGGCAGGGCAAUGUCCACUUACCAUUGCCCAUUUACCUAUCGCCAUCAG----CAGGAACAUUGCCAACGUGGCU---------GACAUGGGGGCCACA
((-((((((..(((....))).((((((((.........))))))))......))))))))....(----(((.....))))....((((((---------........)))))). ( -41.20)
>DroSim_CAF1 22877 102 + 1
GG-CGAUAGCAGCUGAGUGGCAGGGCAAUGUCCACUUACCAUUGCCCAUUUACCUAUCGCCAUCAG----CAGGAACAUGGCCAACGUGGCU---------GACAUGGGGGCCACA
((-((((((..(((....))).((((((((.........))))))))......)))))))).....----........(((((..((((...---------..))))..))))).. ( -44.70)
>DroEre_CAF1 19731 105 + 1
GG-CGAUAGCAGCUGAGUGGCAGCGCAAUGUCCACUUGCCACUGCCCAUUUACCUAUCGCCAUCAG----CUGGAACAUGGC--ACAUGGA----ACAUGGAGCAUGGGGGCCACA
((-((((((....((((((((((.((((.(....)))))..))).))))))).))))))))....(----.(((..(...((--.((((..----.))))..))....)..)))). ( -35.30)
>DroYak_CAF1 20892 103 + 1
GG-CGAUAGCAGCUGAGUGGCAGCGCAAUGUCCACUUACCAUUGCCCAUUUACCUAUCGCCAUCAG----CAGGAACAUGGCUGACAUGGGGGCCACACG--------GAGCCACA
((-((((((..((((.....))))((((((.........))))))........)))))))).((((----(.........)))))....((..((....)--------)..))... ( -34.00)
>DroAna_CAF1 29564 97 + 1
GGCCGAUAGCAGCUGAGUAGCAGGGCAAUGUCCAUUUACC-------AUUCACCUAUUGGCAACACACACAAGGGGCACCACCCG-GGGGCA---------GGGCUGGGGGU--AG
.((((((((..(((....))).((((...)))).......-------......))))))))................(((.((((-(.....---------...))))))))--.. ( -28.60)
>consensus
GG_CGAUAGCAGCUGAGUGGCAGGGCAAUGUCCACUUACCAUUGCCCAUUUACCUAUCGCCAUCAG____CAGGAACAUGGCCAACGUGGCU_________GACAUGGGGGCCACA
((.((((((....(((((((....((((((.........))))))))))))).)))))))).................(((((..((((..............))))..))))).. (-20.65 = -22.66 +   2.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:34 2006