Locus 7706

Sequence ID 3R_DroMel_CAF1
Location 20,706,681 – 20,706,780
Length 99
Max. P 0.523641
window12432

overview

Window 2

Location 20,706,681 – 20,706,780
Length 99
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 76.28
Mean single sequence MFE -24.43
Consensus MFE -18.40
Energy contribution -18.43
Covariance contribution 0.03
Combinations/Pair 1.22
Mean z-score -0.76
Structure conservation index 0.75
SVM decision value -0.02
SVM RNA-class probability 0.523641
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20706681 99 + 27905053
CUUCUUU--UUUUAAA--UUGCCCAAAU-AUUCUUUCAGAGCGGCGUCUCCUACAUAGCCAGUCCCGCAGGAUCCACCAAUGAUGCUGGUGUCAUUGCCGCCUG
.......--.......--..........-.......(((.(((((((.....))...((((((..((..((.....))..))..))))))......)))))))) ( -21.90)
>DroVir_CAF1 4139 96 + 1
UCUU-----GGUUAAC--UUUUACU-UUGAUUCUUGCAGAGCGGCGUCUCCUACAUAGCCAGUCCAUCGGGCUCCACCAAUGAUGCGGGCGUCAUUGCCGCCUG
((..-----(((....--....)))-..))......(((.(((((...........((((.(.....).)))).....(((((((....))))))))))))))) ( -25.90)
>DroEre_CAF1 3794 96 + 1
CUUU-----AUUUGAA--UUGCUUCAAU-AUUUUCCCAGAGCGGUGUCUCCUACAUCGCCAGUCCCGCAGGAUCCACCAAUGAUGCUGGUGUCAUUGCCGCCUG
....-----..(((((--....))))).-.......(((.(((((((.....))..(((((((..((..((.....))..))..))))))).....)))))))) ( -22.50)
>DroYak_CAF1 4066 103 + 1
UUUUCUUAUAUUUAAAUAUUGCUGCAAC-AUUUUUUCAGAGCGGCGUCUCCUACAUCGCCAGCCCCGCAGGAUCCACCAAUGAUGCUGGUGUCAUUGCCGCCUG
............................-.......(((.(((((((.....))..(((((((..((..((.....))..))..))))))).....)))))))) ( -24.80)
>DroMoj_CAF1 3781 96 + 1
CACU-----AGCUAAU--UUUUGUU-CUUCUGCUUACAGAGCGGCGUCUCCUACAUAGCCAGUCCGUCCGGCUCCACCAAUGAUGCAGGCGUCAUUGCCGCCUG
....-----(((....--.......-.....)))..(((.(((((...........((((.(.....).)))).....(((((((....))))))))))))))) ( -24.79)
>DroAna_CAF1 3686 94 + 1
UUUC-----AUCCAAUUCUUGUU----U-CCUCUUUCAGAGUGGAGUCUCUUACAUAGCCAGUCCGGCGGGCUCCACCAAUGAUGCUGGCGUCAUUGCGGCCUG
....-----..((..........----.-...........(((((((((........(((.....))))))))))))((((((((....)))))))).)).... ( -26.70)
>consensus
CUUU_____AUUUAAA__UUGCUCC_AU_AUUCUUUCAGAGCGGCGUCUCCUACAUAGCCAGUCCCGCAGGAUCCACCAAUGAUGCUGGCGUCAUUGCCGCCUG
....................................(((.(((((((.....))...((((((......((.....))......))))))......)))))))) (-18.40 = -18.43 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:37 2006