Locus 6959

Sequence ID 3L_DroMel_CAF1
Location 18,795,895 – 18,796,011
Length 116
Max. P 0.608298
window11284

overview

Window 4

Location 18,795,895 – 18,796,011
Length 116
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 77.24
Mean single sequence MFE -31.27
Consensus MFE -17.80
Energy contribution -17.58
Covariance contribution -0.22
Combinations/Pair 1.27
Mean z-score -1.60
Structure conservation index 0.57
SVM decision value 0.15
SVM RNA-class probability 0.608298
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18795895 116 - 23771897
---AAAUUCAUAUUUUUGUAGGCCACCAUACCCCACCAAGAUCACUCUGUGCUACUAUCUGGGCAUUGCCUACGCCUCCUCGCUGGGUGGCUGUGGAACCAUCAUCGGAACUGCCACCA
---..............((((((...............(((....)))(((((........))))).))))))((......))..((((((.((....((......)).)).)))))). ( -28.40)
>DroVir_CAF1 1431 115 - 1
---AUCGUCCAAUUCG-ACAGGCUGCCGUAUCCCACAAAGGUCACGCAAUGCUACUACCUGGGCAUUGCCUAUGCCUCGUCUCUGGGCGGCUGUGGCACCAUCAUUGGCACCGCCACAA
---.(((((((....(-((((((....((..((......))..))((((((((........))))))))....)))).)))..))))))).((((((.(((....)))....)))))). ( -42.50)
>DroPse_CAF1 4683 114 - 1
---GAUUACCCCCCA--CCAGGCCACCAUAUCCCACCAAGAUCACUCUUUGCUACUAUUUGGGCAUUGCCUACGCCUCAUCGCUGGGCGGCUGUGGAACCAUCAUUGGAACGGCCACCA
---............--...((((.(((((.((................((((........))))..(((((.((......))))))))).)))))..(((....)))...)))).... ( -31.50)
>DroGri_CAF1 1938 115 - 1
---CAUUUCUAAUUGU-ACAGAUUGCCAUAUCCUACAAAGGUUACACAAUGCUAUUAUCUGGGUAUUGCCUAUGCAUCGUCUCUUGGUGGCUGUGGAACCAUAAUUGGCACUGCCACAA
---.........((((-.(((..(((((...........((((.((((..(((((((...(((...(((....)))....))).))))))))))).)))).....))))))))..)))) ( -26.39)
>DroAna_CAF1 1135 118 - 1
AACCAUUUUGUAUUCC-UUAGACCUCCCUACCCCACCAAGAUCACUCUGUGCUACUAUCUGGGCAUCGCCUAUGCUUCUUCUCUGGGCGGUUGUGGCACCAUCAUUGGAACUGCCACUA
................-...((((.(((.....(((..((....))..)))........(((((...)))))............))).))))(((((((((....)))...)))))).. ( -27.30)
>DroPer_CAF1 4747 114 - 1
---GAUUACCCCCCA--CCAGGCCACCAUAUCCCACCAAGAUCACUCUUUGCUACUAUUUGGGCAUUGCCUACGCCUCAUCGCUGGGCGGCUGUGGAACCAUCAUUGGAACGGCCACCA
---............--...((((.(((((.((................((((........))))..(((((.((......))))))))).)))))..(((....)))...)))).... ( -31.50)
>consensus
___AAUUUCCAAUUA__ACAGGCCACCAUAUCCCACCAAGAUCACUCUAUGCUACUAUCUGGGCAUUGCCUACGCCUCAUCGCUGGGCGGCUGUGGAACCAUCAUUGGAACUGCCACCA
....................((((........................(((((........))))).(((((.(........))))))))))((((..(((....))).....)))).. (-17.80 = -17.58 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:06 2006