Locus 3945

Sequence ID 2R_DroMel_CAF1
Location 13,020,854 – 13,020,948
Length 94
Max. P 0.857137
window6371

overview

Window 1

Location 13,020,854 – 13,020,948
Length 94
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 75.00
Mean single sequence MFE -26.18
Consensus MFE -13.89
Energy contribution -12.82
Covariance contribution -1.06
Combinations/Pair 1.33
Mean z-score -2.14
Structure conservation index 0.53
SVM decision value 0.81
SVM RNA-class probability 0.857137
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13020854 94 - 20766785
AAGAAAGAA-GUAAUCACUUAUUUUUUUCUCUGCAUCAG-----GGAGC-UACAUCCUAUAUGAUAGUUUGUCAUCCUUACCUGUCGCGAGCGGUGCGCUG
.((((((((-((((....))))))))))))..(((((((-----(((..-.(((..((((...))))..)))..)))))....(.(....))))))).... ( -24.90)
>DroSec_CAF1 359 95 - 1
CAGAAAGGA-GUAAUCACUUCUUUUUUUCUGUGCACCUU-----AUAUCCUAUAUCCUUAGUGAUAGUUUGUCAUCCUUACCUGUCGCGAGCGGUGCGCUG
.((((((((-((....))))))))))....(((((((..-----.(((((((......))).))))((((((.((........)).))))))))))))).. ( -28.80)
>DroSim_CAF1 359 95 - 1
CAGAAAGGA-GUAAUCACUUCUUUUUUUUUGUGCACCUU-----AUAUCUUAUAUCCUUAAUGAUAGUUUGUCAUCAUUACCUGUCGCGAGCGGUGCGCUG
.((((((((-((....))))))))))....(((((((..-----.(((((((......))).))))((((((...((.....))..))))))))))))).. ( -26.80)
>DroYak_CAF1 359 101 - 1
UGAUAUGUAUAUAUGUACAUAUGUAUGUAGAUACACCUUGGGGUAUAUCCUACAAAGUCCUUGCUAGUUUGUAGUCCUUACCUGUCGCGAGCGGUGCGCUG
...(((((((((((....)))))))))))....((((...(((((....(((((((.(.......).)))))))....)))))(.(....))))))..... ( -24.20)
>consensus
CAGAAAGGA_GUAAUCACUUAUUUUUUUCUGUGCACCUU_____AUAUCCUACAUCCUUAAUGAUAGUUUGUCAUCCUUACCUGUCGCGAGCGGUGCGCUG
..(((((((.((....)).)))))))....(((((((...............(((.....)))...((((((.((........)).))))))))))))).. (-13.89 = -12.82 +  -1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:59 2006