Locus 5312

Sequence ID 2R_DroMel_CAF1
Location 17,230,959 – 17,231,079
Length 120
Max. P 0.517199
window8486

overview

Window 6

Location 17,230,959 – 17,231,079
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.39
Mean single sequence MFE -48.33
Consensus MFE -24.23
Energy contribution -23.90
Covariance contribution -0.33
Combinations/Pair 1.45
Mean z-score -1.69
Structure conservation index 0.50
SVM decision value -0.03
SVM RNA-class probability 0.517199
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17230959 120 + 20766785
AACUAUUCACACGUAUCAGGGAAGCCGUCUGCUGCUCAGCGGAAUGUGGGGAUGGGUACGCCAGCCCAACUAUCUAGGCGACAUCGUGGCCCUGCUGGCCCUGGCUGCUCCCAUGGCCCU
.........(((((....((....)).((((((....)))))))))))((((((((..((((((.............(((....)))((((.....))))))))).)..)))))..))). ( -42.50)
>DroVir_CAF1 41175 120 + 1
CACCAUACACACCUACCAGGGCAGCCGGCUGCUGUUGAGCGGCCUGUGGGGACAUUUGCGCCAGCCCAACUAUUUGGGCGAUAUACUCGCCCUCUGUGCGCUGGGCGCGCCCAUGUCCCU
.......((((((.....))......(((((((....)))))))))))(((((((..((((..(((((.((((..((((((.....))))))...))).).)))))))))..))))))). ( -56.70)
>DroGri_CAF1 37533 120 + 1
CACCAUACACACGUAUCAGGGCAAUCGUUUGCUGCUCGGCGGCCUUUGGGGCCGCUUGAGGCAGCCCAACUAUCUGGGCGAUAUCCUUGCCAUGUGUGCCUUGGGUGCGCCCAUGUUGCU
.......(((((((..(((((..(((((..((((((((((((((.....)))))).))).)))))(((......))))))))..)))))..)))))))...((((....))))....... ( -51.70)
>DroWil_CAF1 44267 120 + 1
GACUAUACACACCUAUCAGGGCAGUCGGUUGCUCUUGAGUGGCCUGUGGGGACAUUUGCGUCAACCCAAUUAUCUGGGUGACAUCAUUGCUCUUGUGGCUCUGGGUACUCCCAUGGUCAU
((((((......((((.((((((((.(((..((....))..))).(((....)))....((((.((((......))))))))...)))))))).))))....(((....))))))))).. ( -45.10)
>DroMoj_CAF1 43108 120 + 1
GACCAUUCACACCUACCAGGGCAACCGGCUGCUGCUGAGCGGCAUGUGGGGCCAUCUGCGCCAGCCCAACUAUCUGGGUGACAUCAUCGCGCUUUGCGCUCUGGCCGCGCCCAUGAUCCU
..................((((...((((....)))).(((((....(((((((...((((..(((((......)))))((.....))))))..)).))))).)))))))))........ ( -45.70)
>DroAna_CAF1 28879 120 + 1
GACGAUUCACACAUACCAGGGCAGCCGUCUGCUGUUGGCCGGCACGUGGGGAUGGGUGAGACAGCCCAACUACCUGGGCGACAUCCUGGCUCUCCUGGCCCUCGCCGCCCCCCUGGCCCU
.................(((((.((((.((......)).)))).((.((((...((((((...(((((......)))))........((((.....))))))))))..)))).))))))) ( -48.30)
>consensus
GACCAUACACACCUACCAGGGCAGCCGGCUGCUGCUGAGCGGCAUGUGGGGACAUUUGCGCCAGCCCAACUAUCUGGGCGACAUCCUCGCCCUCUGGGCCCUGGCCGCGCCCAUGGCCCU
...............(((((((.....((((((....))))))....((((............(((((......)))))..........))))....)))))))................ (-24.23 = -23.90 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:48 2006