Locus 4512

Sequence ID 3R_DroMel_CAF1
Location 11,973,864 – 11,973,984
Length 120
Max. P 0.551855
window7372

overview

Window 2

Location 11,973,864 – 11,973,984
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.83
Mean single sequence MFE -36.22
Consensus MFE -22.90
Energy contribution -21.91
Covariance contribution -0.99
Combinations/Pair 1.53
Mean z-score -1.69
Structure conservation index 0.63
SVM decision value 0.04
SVM RNA-class probability 0.551855
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11973864 120 + 27905053
CAUCACAAUCGGGACGUGGGUUACUGCCAAGGUCUUAACUACAUAGCCGGCCUCCUGUUGAUCGUCACCGACGAUGAGGAGAAGUCCUUUUGGCUGCUCAAGCAUAUCGUUGAAAACAUC
.....(((.(((((.((.(((((.((...((.......)).))))))).)).))))))))...((...((((((((..(((.((.((....)))).))).....))))))))...))... ( -31.70)
>DroVir_CAF1 89350 120 + 1
CACCAUAAUCGCGAUGUUGGCUAUUGCCAGGGUCUGAAUUAUAUAGCUGGUCUGUUGCUCAUUGUCACGGAUGAUGAAGAGAAGUCCUUCUGGCUGCUAAAGCAUAUCGUUGAGAAAAUC
....(((((((.(((.(((((....))))).))))).))))).((((..((((((.((.....)).))))))((((...((((....)))).(((.....))).))))))))........ ( -28.90)
>DroGri_CAF1 87586 120 + 1
CACCAUAAUCGUGAGAUUGGCUACUGCCAGGGUCUUAAUUAUAUAGCCGGACUACUGCUCAUUGUCACCAAAGAUGAGGAGAAGUCCUUUUGGCUGCUUAAGUAUAUAGUUGAGCAAAUU
..((..((((....))))(((....))).))(.((((((((((((((((((((.((.((((((.........)))))).)).)))))....))))((....))))))))))))))..... ( -40.80)
>DroWil_CAF1 86728 120 + 1
CAUCAUAAUCGUGACGUGGGCUACUGUCAGGGUCUCAAUUAUAUAGCCGGUUUACUAUUAAUUGUCACUAACGAUGAGGAGAAAUCGUUUUGGCUGCUCAAGCAUAUUGUUGAGAACAUU
........((.(((((.(.....)))))).))(((((((.((((((((((...((.(((..((.((((....).))).))..))).)).))))))((....)))))).)))))))..... ( -29.20)
>DroMoj_CAF1 85628 120 + 1
CAUCAUAAUCGAGAUGUUGGCUACUGCCAGGGUCUCAACUAUAUAGCCGGCCUGCUGCUCAUUGUCACCGAUGACGAGGAGAAGUCCUUCUGGCUGCUGAAGCAUAUCGUUGAGAAUAUA
((((........))))(((((....)))))..(((((((.((((((((((...(((.(((.((((((....)))))).))).)))....))))))((....)))))).)))))))..... ( -40.60)
>DroAna_CAF1 98893 120 + 1
CACCACAACCGGGAUGUGGGCUACUGCCAAGGCCUCAACUAUAUCGCCGGUCUCCUCCUUAUCGUCACAGACGAUGAGGAGAAAUCUUUUUGGCUGCUCAAGCACAUCGUGGAGAACAUU
..((((.((((((((((((......((....)).....))))))).)))))...((((((((((((...)))))))))))).........(((((.....))).))..))))........ ( -46.10)
>consensus
CACCAUAAUCGGGAUGUGGGCUACUGCCAGGGUCUCAACUAUAUAGCCGGUCUACUGCUCAUUGUCACCGACGAUGAGGAGAAGUCCUUUUGGCUGCUCAAGCAUAUCGUUGAGAACAUU
.....((((.......(((((....((((((((............)))((.((.((.(((((((((...))))))))).)).)).))..))))).)))))........))))........ (-22.90 = -21.91 +  -0.99)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:09 2006