Locus 2013

Sequence ID 3L_DroMel_CAF1
Location 5,537,217 – 5,537,337
Length 120
Max. P 0.786199
window3151

overview

Window 1

Location 5,537,217 – 5,537,337
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.44
Mean single sequence MFE -37.89
Consensus MFE -17.11
Energy contribution -18.45
Covariance contribution 1.34
Combinations/Pair 1.28
Mean z-score -2.26
Structure conservation index 0.45
SVM decision value 0.57
SVM RNA-class probability 0.786199
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5537217 120 - 23771897
CGUGCGCAACCUGAAUCUGCUGGAGUUCCAGAGCAAGGAUCUCCUCCAGAAGUAUGGAGUGGCCAUACAGCAAUUCAAGGUCUUGAAUAACUCCAAGGCAGAUGCCGAGGUCGUCAAGAC
..(((..........((((..((((.(((.......))).))))..)))).((((((.....)))))).))).......(((((((....(((...(((....))))))....))))))) ( -41.40)
>DroVir_CAF1 1253 120 - 1
GUUGCGGUAUCUGAAUUUGUUGGAGUUCCAGUCCAAGGAUUUGCUACAAAAGUAUGGAGUUGCCAUACAACAAUUCAAGGUCUUGGAUAACUCCAAAGAUGAUACGCAAGCUGUCCAAUC
.(((((.(((((.......((((((((...(((((((..((((........((((((.....)))))).......))))..))))))))))))))))))))...)))))........... ( -36.97)
>DroPse_CAF1 1243 120 - 1
GGUCCGUCAGCUGAAUCUUUUGGAGUUCCAGAGCAAGGACCUGCUCCAGAAGUACGGCGUGGCCAUCCAACAAUUCAAGGUCUUGGAUAACUCCAAUUCCGAUGCAGAGAUUGUCAAGAC
((...((((((((...(((((((((((((.......)))...))))))))))..)))).))))...)).((((((((.((..(((((....)))))..))..))....))))))...... ( -37.40)
>DroWil_CAF1 2288 120 - 1
GGUGCGCCAUCUCAAUCUUCUGGAAUUCCAAAGCAAGGAUCUAUUACAAAAAUAUGGUGUGGCUAUACAACAAUUUAAGGUCUUGGAUAACUCCAAGGCAGAUGCUGAAUUGGUCAAGAA
(.((((((((..........((((..(((.......)))))))..........)))))))).).......(((((((..((((((((....))))))))......)))))))........ ( -27.85)
>DroMoj_CAF1 1279 120 - 1
GGUGCGACACCUGAAUCUAUUGGAGUUCCAGUCCAAGGACUUACUGCAGAAGUAUGGCGUAGCCAUACAACAGUUCAAGGUAUUGGAUAACUCCAGUACCGAUACGCAAGUGGUCAAUUC
((((...))))(((((...(((.(((...((((....)))).))).)))..(((((((...)))))))....))))).(((((((((....)))))))))(((((....)).)))..... ( -42.40)
>DroAna_CAF1 1337 120 - 1
AGUCCGCCAUCUGAAUCUCUUGGAGUUCCAGAGCAAAGAUCUCCUCCAGAAGUAUGGGGUAGCAAUUCAGCAGUUCAAGGUCCUGGACAACUCCAAAGCAGAUGCAGAUGUGGUGAAAAG
...((((.(((((.(((((((((((((((((..(...((.((.(((((......)))))..((......)))).))...)..)))))..))))).))).)))).)))))))))....... ( -41.30)
>consensus
GGUGCGCCAUCUGAAUCUGUUGGAGUUCCAGAGCAAGGAUCUACUCCAGAAGUAUGGAGUGGCCAUACAACAAUUCAAGGUCUUGGAUAACUCCAAAGCAGAUGCAGAAGUGGUCAAGAC
..........(((.(((..((((((((((((......(((((.........((((((.....)))))).........))))))))))..)))))))....))).)))............. (-17.11 = -18.45 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:28 2006