Locus 3348

Sequence ID 3R_DroMel_CAF1
Location 9,020,141 – 9,020,241
Length 100
Max. P 0.945862
window5393

overview

Window 3

Location 9,020,141 – 9,020,241
Length 100
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 82.46
Mean single sequence MFE -32.88
Consensus MFE -26.72
Energy contribution -27.17
Covariance contribution 0.45
Combinations/Pair 1.15
Mean z-score -2.95
Structure conservation index 0.81
SVM decision value 1.36
SVM RNA-class probability 0.945862
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9020141 100 + 27905053
AUGUGGCUUUUAUUCAUUACAUAAUUACUGUUGUGUUUGCACUGUG---GCAAGCAGCAGUCGCCCCUGGGGCAAAGG--------UUAGUGCAACCAGCAGUGAUUAUGA
...................((((((((((((((.(((.((((((.(---((........)))((((...)))).....--------.))))))))))))))))))))))). ( -37.30)
>DroPse_CAF1 135151 100 + 1
AUGUGGCUUUUAUUCAUUACAUAAUUACUGUUGUGUUUGCACAGCG---GCAC--------CUCCCCCCCGGCAAUGAUAGAUACAUAAGUCCAACCAGCAGUAAUUAUGA
...................((((((((((((((.((((((...(.(---(...--------.....)).).)))......(((......))).))))))))))))))))). ( -23.10)
>DroSim_CAF1 137410 100 + 1
AUGUGGCUUUUAUUCAUUACAUAAUUACUGUUGUGUUUGCACUGCG---GAAAGCAGCAGUCGCCCCUGGGGCAAAGG--------UUAGUGCAACCAGCAGUGAUUAUGA
...................((((((((((((((.(((.(((((((.---....))(((..(.((((...)))).)..)--------)))))))))))))))))))))))). ( -37.20)
>DroYak_CAF1 146023 100 + 1
AUGUGGCUUUUAUUCAUUACAUAAUUACUGUUGUGUUUGCACUGUG---GCAAGCAGCAGUCGCCCCUGGGGCAAAGG--------UUAGUGCAACCAGCAGUGAUUAUGA
...................((((((((((((((.(((.((((((.(---((........)))((((...)))).....--------.))))))))))))))))))))))). ( -37.30)
>DroAna_CAF1 144689 103 + 1
AUGUGGCUUUUAUUCAUUACAUAAUUGCUGUUGUGUUUGCACUGCGGCGGCAGGCUGCAGUUGUCCCCCGGGCAGAGG--------UUAGUGCAACCAGCAGUGAUUAUGA
...................((((((..((((((.(((.((((((((((.....)))))..((((((...))))))...--------..))))))))))))))..)))))). ( -40.70)
>DroPer_CAF1 135825 100 + 1
AUGUGGCUUUCAUUCAUUACAUAAUUACUGUUGUGUUUGCACUGCG---GCAC--------CUCCCCCCCGGCAAUGGUACAUACAUAAGUCCAACCAGCAGUAAUUAUUA
....................(((((((((((((.((((((...(.(---(...--------...)).)...))))(((.((........)))))))))))))))))))).. ( -21.70)
>consensus
AUGUGGCUUUUAUUCAUUACAUAAUUACUGUUGUGUUUGCACUGCG___GCAAGCAGCAGUCGCCCCCCGGGCAAAGG________UUAGUGCAACCAGCAGUGAUUAUGA
...................((((((((((((((.(((.(((((((....))...........(((.....)))...............)))))))))))))))))))))). (-26.72 = -27.17 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:59 2006