Locus 4109

Sequence ID 2R_DroMel_CAF1
Location 13,508,759 – 13,508,857
Length 98
Max. P 0.681321
window6619

overview

Window 9

Location 13,508,759 – 13,508,857
Length 98
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 78.29
Mean single sequence MFE -20.23
Consensus MFE -13.85
Energy contribution -14.35
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.28
Structure conservation index 0.68
SVM decision value 0.31
SVM RNA-class probability 0.681321
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13508759 98 + 20766785
---UGGA-GC-------UCUCGUAAAAAGGCAUUAAGAGCAAACGUAAAGUGCCUAUUUAAGUUGAGUCAUAAAAUUGGCUUUCUAUC-UGGACGA-GUAGCGAAAA---GGAA
---....-((-------((((((....(((((((....((....))..))))))).....((..((((((......)))))).))...-...))))-).))).....---.... ( -24.30)
>DroPse_CAF1 54847 88 + 1
---CGGC-UC-------UCUCGUAAAAAGGCAUUAAGACCAAAAGUAAAGUGCCUAUUUAAGUUGAGUCAUAAAAUUGGCUUUCUAUC-UGGC-----------AAA---GGGA
---.(((-((-------.....((((.(((((((...((.....))..))))))).))))....))))).........(((.......-.)))-----------...---.... ( -20.40)
>DroGri_CAF1 22339 86 + 1
UCGUGGAGGC-------GCUCAUAAAAAGGCAUUAAGACUAA-AGUAAAGUGCCUAUUUAAGUUGAGUCAUAAAAUUGGCUUUCUAUC-UGGC-------------------AA
....((((((-------(((((((((.(((((((...((...-.))..))))))).))))...)))))((......))))))))....-....-------------------.. ( -21.20)
>DroWil_CAF1 27216 96 + 1
------C-CC-------CCUCAUAAAAUGGCAUUAAGAGCAAAAGUAAAGUGCCUAUUUAAGUUGAGUCAUAAAAUUGGCUUUCUAUCCUGGUCUC----CCGAAAAACUCGCA
------.-..-------((.....((((((((((....((....))..)))))).)))).((..((((((......)))))).)).....))....----.(((.....))).. ( -13.50)
>DroAna_CAF1 58768 106 + 1
---CAGA-GCGCAAUAUUCUCAUAAAAAGGCAUUAAGACCAAAAGUAAAGUGCCUAUUUAAGUUGAGUCAUAAAAUUGGCUUUCUAUC-UCGCCCCAGCAAAGAAGA---GGCA
---.(((-((.((((...((((((((.(((((((...((.....))..))))))).))))...)))).......))))))))).....-..(((.(.........).---))). ( -21.60)
>DroPer_CAF1 62896 88 + 1
---CGGC-UC-------UCUCGUAAAAAGGCAUUAAGACCAAAAGUAAAGUGCCUAUUUAAGUUGAGUCAUAAAAUUGGCUUUCUAUC-UGGC-----------AAA---GGGA
---.(((-((-------.....((((.(((((((...((.....))..))))))).))))....))))).........(((.......-.)))-----------...---.... ( -20.40)
>consensus
___CGGA_GC_______UCUCAUAAAAAGGCAUUAAGACCAAAAGUAAAGUGCCUAUUUAAGUUGAGUCAUAAAAUUGGCUUUCUAUC_UGGC___________AAA___GGAA
......................((((.(((((((...((.....))..))))))).))))((..((((((......)))))).))............................. (-13.85 = -14.35 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:02 2006