Locus 6420

Sequence ID 3L_DroMel_CAF1
Location 17,206,791 – 17,206,947
Length 156
Max. P 0.993709
window10280 window10281

overview

Window 0

Location 17,206,791 – 17,206,907
Length 116
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 74.83
Mean single sequence MFE -43.67
Consensus MFE -23.10
Energy contribution -23.03
Covariance contribution -0.08
Combinations/Pair 1.46
Mean z-score -2.70
Structure conservation index 0.53
SVM decision value 2.42
SVM RNA-class probability 0.993709
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17206791 116 - 23771897
GCGCUACGUGGUCAAACAGAUCCAGCUGCUGUGCAAAAAGCCGCCGAAGGGAUUUGAAAAGUAUUUCGAAGCCGGCGGCAAGUCGUCUGGCCAACCGAAGGGAUCCGUCG---GCGAUA
.(((((((((((((.((.(((...(((((((.((.........((....)).(((((((....))))))))))))))))..))))).)))))).((....))...))).)---)))... ( -42.80)
>DroVir_CAF1 113128 116 - 1
GCGCUACAUUGUGGAGCAGCUGCAAUUGUUCUGCAAGAAGCCGCCCAAGGGCUUUGAAAAGUAUUUUGAGGCUGGCGGCAAAUCUGG---CAAACCCAAAGCCGCCGCCGAGGCGGACA
..((((..(((..((((((......))))))..)))...((((((....(((((..(((....)))..))))))))))).....)))---).........((((((.....))))).). ( -46.60)
>DroPse_CAF1 96928 113 - 1
ACGCUACUUCGUGGAGCAGCUGCAGUUGUUCUGCAAGAAGCCGCCGAAGGGCUUUGAAAAGUUCUUUGAGACCGGCGGCAAGUCCAC---ACAGCCGAAAGGUGCUGCCG---GGGAAA
..(((.(((.(..(((((((....)))))))..)))).)))...((((((((((....))))))))))...((((((((..((....---)).(((....))))))))))---)..... ( -50.00)
>DroMoj_CAF1 111800 113 - 1
UCGGUACAUUGUGGAACAGCUUCAAAUGUUCUGCAAGAAACCGCCGAAGGGUUUUGAAAAGUAUUUCGAGGCCGGUGGCAAAGCU------AAACCAAAAGCAGCCGCCGAGGGAGAUA
.((((...(((..(((((........)))))..)))...))))((....((((((((((....))))))))))((((((...(((------........))).))))))..))...... ( -42.50)
>DroAna_CAF1 73166 113 - 1
CCGCUACAUUGCCAAACAGAUCCAGCUUCUCUGCAAGAAGCCUCCCAAGGGAUUCGAGAAAUACUUCGAAGCCGGGGGCAAGUCGUCA---CAACCAAAAGGUGCUGCCG---CCGAAG
..((.((.(((((...........((((((.....))))))..(((...((.((((((......)))))).)))))))))))).))..---.........((((....))---)).... ( -30.10)
>DroPer_CAF1 69688 113 - 1
ACGCUACUUCGUGGAGCAGCUGCAGUUGUUCUGCAAGAAGCCGCCGAAGGGCUUUGAAAAGUUCUUUGAGACCGGCGGCAAGUCCAC---ACAGCCGAAAGGUGCUGCCG---GGGAAA
..(((.(((.(..(((((((....)))))))..)))).)))...((((((((((....))))))))))...((((((((..((....---)).(((....))))))))))---)..... ( -50.00)
>consensus
ACGCUACAUUGUGGAACAGCUGCAGUUGUUCUGCAAGAAGCCGCCGAAGGGCUUUGAAAAGUACUUCGAGGCCGGCGGCAAGUCCAC____CAACCGAAAGGUGCCGCCG___GGGAAA
..(((.....(((((((((......)))))))))....))).(((....)))((((((......))))))..(((((((........................)))))))......... (-23.10 = -23.03 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 17,206,827 – 17,206,947
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.83
Mean single sequence MFE -44.91
Consensus MFE -28.55
Energy contribution -26.61
Covariance contribution -1.94
Combinations/Pair 1.43
Mean z-score -1.48
Structure conservation index 0.64
SVM decision value 0.26
SVM RNA-class probability 0.658346
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17206827 120 - 23771897
CCGGGGUUUACAUCCUGCCCACGGAGCUGUCGCCCCUGCUGCGCUACGUGGUCAAACAGAUCCAGCUGCUGUGCAAAAAGCCGCCGAAGGGAUUUGAAAAGUAUUUCGAAGCCGGCGGCA
...((((((......((.(((((.(((.((.((....)).))))).))))).))...)))))).(((((((.((.........((....)).(((((((....)))))))))))))))). ( -41.30)
>DroPse_CAF1 96961 120 - 1
UCGGCGUUGGUAUGCUGCCGGGGCAACUUACGCCCCUAAUACGCUACUUCGUGGAGCAGCUGCAGUUGUUCUGCAAGAAGCCGCCGAAGGGCUUUGAAAAGUUCUUUGAGACCGGCGGCA
..(((((.(((.....)))(((((.......)))))....))))).(((.(..(((((((....)))))))..))))..(((((((((((((((....))))))))......))))))). ( -53.10)
>DroSec_CAF1 91309 120 - 1
CCGGUGUUUACAUCAUGCCCACGGAGCUGUCGCCUCUGCUGCGCUACGUGGUCAAACAGAUCCAGCUGCUGUGCAAGAAGCCGCCGAAGGGAUUCGAAAAGUAUUUCGAAGCCGGCGGCA
..((((....)))).((.(((((.(((.((.((....)).))))).))))).))..........(((((((.((.........((....)).(((((((....)))))))))))))))). ( -42.80)
>DroSim_CAF1 83593 120 - 1
CCGGGGUUUACAUCAUGCCCACGGAGCUGUCGCCUCUGCUGCGCUACGUGGUCAAACAGAUCCAGCUGCUGUGCAAGAAGCCGCCGAAGGGAUUCGAAAAGUAUUUCGAAGCCGGCGGCA
...((((((......((.(((((.(((.((.((....)).))))).))))).))...)))))).(((((((.((.........((....)).(((((((....)))))))))))))))). ( -43.40)
>DroAna_CAF1 73199 120 - 1
CUGGAGUCUACAUGUUCCCAGUGGAGCUGAAUCCGCUUAUCCGCUACAUUGCCAAACAGAUCCAGCUUCUCUGCAAGAAGCCUCCCAAGGGAUUCGAGAAAUACUUCGAAGCCGGGGGCA
..((((.(.....)))))(((.(((((((.(((.........((......))......))).))))))).)))......((((((....((.((((((......)))))).)))))))). ( -35.76)
>DroPer_CAF1 69721 120 - 1
UCGGCGUUGGUAUGCUGCCGGGGCAACUUACGCCCCUAAUACGCUACUUCGUGGAGCAGCUGCAGUUGUUCUGCAAGAAGCCGCCGAAGGGCUUUGAAAAGUUCUUUGAGACCGGCGGCA
..(((((.(((.....)))(((((.......)))))....))))).(((.(..(((((((....)))))))..))))..(((((((((((((((....))))))))......))))))). ( -53.10)
>consensus
CCGGCGUUUACAUCCUGCCCACGGAGCUGACGCCCCUGAUGCGCUACGUGGUCAAACAGAUCCAGCUGCUCUGCAAGAAGCCGCCGAAGGGAUUCGAAAAGUACUUCGAAGCCGGCGGCA
.((((((....)))))).(((((.(((...............))).))))).............((......)).....((((((....((.((((((......)))))).)))))))). (-28.55 = -26.61 +  -1.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:59 2006