Locus 8627

Sequence ID 3R_DroMel_CAF1
Location 23,064,508 – 23,064,607
Length 99
Max. P 0.512192
window13861

overview

Window 1

Location 23,064,508 – 23,064,607
Length 99
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 68.99
Mean single sequence MFE -44.25
Consensus MFE -20.29
Energy contribution -19.60
Covariance contribution -0.69
Combinations/Pair 1.36
Mean z-score -1.53
Structure conservation index 0.46
SVM decision value -0.04
SVM RNA-class probability 0.512192
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23064508 99 + 27905053
GGCGCUGGGCGCAGGCGCGG---CACCUCCGGUGGUGGGCGUAACCGGAA-UGGAGAC--ACUCGAGGAUUGGGAGUCUUCACUCCUUUCGCGGCGC---ACCAGCAG
...(((((((((..((.((.---((((...)))).)).))(..(..(((.-(((((((--.(((((...))))).))))))).)))..)..).))))---.))))).. ( -46.80)
>DroVir_CAF1 20197 84 + 1
---AUUGGGCGCAGGCGUUGC---CGUUGACGUUGG---CGUUGC------UGGCGAC--G-UUGACG---CAGAGUCGUCGCUUUUAUCAUGGCGC---ACCAACAA
---.((((((((.((((((((---((..((((....---))))..------)))))))--)-))((((---......))))............))))---.))))... ( -35.70)
>DroPse_CAF1 11395 102 + 1
---GCUGGGCGCAGGCGCUGGUUCGGCUCCCGUUGGGGGCGGAGGCGUUGUUGGCGACGCAGUUGGCG---AGGAGUCGUAGCUUCUAUCAUGGCGAACAACCAGCAA
---((((((((....)))..(((((((((((((..(..(((..(.((....)).)..)))..)..)))---.))))))...(((........)))))))..))))).. ( -48.10)
>DroEre_CAF1 9025 99 + 1
GGCGUUGGGCGCAGGCGCGG---CACCUCCAGUGGGGGGCGUAACCGGAA-CGGAGAC--AUUCGAGGAUUGGGAGUCUUCGCUCCUUUCGCGGCGC---ACCAGCAG
...(((((((((...(((((---(.(((((....))))).))....(((.-(((((((--.(((((...))))).))))))).)))...))))))))---.))))).. ( -45.90)
>DroYak_CAF1 9036 99 + 1
GACGUUGGGCGCAGGCGCGG---CACCUCCAGUGGGGGGCGUAACCGAAA-CGGAGAC--ACUCGAGGAUUGGGAGUCUUCGCUCCUUUCGCGACGC---ACCAGCAG
...((((((((....(((.(---(.(((((....))))).))....((((-.((((..--...(((((((.....)))))))))))))))))).)))---.))))).. ( -40.90)
>DroPer_CAF1 13991 102 + 1
---GCUGGGCGCAGGCGCUGGUUCGGCUCCCGUUGGGGGCGGAGGCGUUGUUGGCGACGCAGUUGGCG---AGGAGUCGUAGCUUCUAUCAUGGCGAACAACCAGCAA
---((((((((....)))..(((((((((((((..(..(((..(.((....)).)..)))..)..)))---.))))))...(((........)))))))..))))).. ( -48.10)
>consensus
___GCUGGGCGCAGGCGCGG___CACCUCCCGUGGGGGGCGUAACCGGAA_UGGAGAC__ACUCGACG___GGGAGUCGUCGCUCCUAUCACGGCGC___ACCAGCAA
...((((((((....))).............(.((((((((....)......((((((....((........)).))))))))))))).)...........))))).. (-20.29 = -19.60 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:15:48 2006