Locus 7431

Sequence ID 2L_DroMel_CAF1
Location 20,624,799 – 20,624,918
Length 119
Max. P 0.553328
window11944 window11945

overview

Window 4

Location 20,624,799 – 20,624,918
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 88.89
Mean single sequence MFE -39.05
Consensus MFE -29.83
Energy contribution -30.17
Covariance contribution 0.34
Combinations/Pair 1.09
Mean z-score -2.07
Structure conservation index 0.76
SVM decision value 0.04
SVM RNA-class probability 0.553328
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20624799 119 + 22407834
GUGAGCCGCGGUUAACGACCAAAAGGGGCCAUUCAGGAUGACAACUGUUUGUUAUUUUCGGUAUAGAAUGGCCAAGGAAGGGCGGG-CAUUACAUGAUCCUUCACCACAUCUACGGAUCG
(((((((((((((...))))......((((((((((((((((((....)))))))))).......))))))))........)).))-).))))..(((((..............))))). ( -37.05)
>DroSec_CAF1 180278 120 + 1
GUGAGCCGCGGUUAGCGACCAAAAGGGGCCAUUCAGGAUGAUAACUGUUUGUGAUUUUUGGUAAAGAAUAGACAAGGUAGGGAGGAUCGUGUAAUGAUCCUCCACCACAUCUGAGGAUCG
(((.(((((.....))..((....))))))))((.(((((.....(((((((..(((.....)))..))))))).(((..((((((((((...))))))))))))).)))))...))... ( -38.80)
>DroSim_CAF1 173301 120 + 1
GUGAGCCGCGGUUAGCGACCAAAAGGGGCCAUUCAGGAUGAUAACUGUUUGUGAUUUUUGGUAAAGAAUAGACAAGGUAGGGAGGAUCGUGUAAUGAUCCUCCACCUUAUCUGAGGAUCG
..((.((((.....)).((((((((...(((..(((........)))..)).).))))))))......((((.(((((..((((((((((...))))))))))))))).)))).)).)). ( -41.30)
>consensus
GUGAGCCGCGGUUAGCGACCAAAAGGGGCCAUUCAGGAUGAUAACUGUUUGUGAUUUUUGGUAAAGAAUAGACAAGGUAGGGAGGAUCGUGUAAUGAUCCUCCACCACAUCUGAGGAUCG
..((.((((.(((....((((((((..((.(..(((........)))..)))..))))))))....))).).)..((...((((((((((...)))))))))).))........)).)). (-29.83 = -30.17 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 20,624,799 – 20,624,918
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 88.89
Mean single sequence MFE -33.07
Consensus MFE -21.93
Energy contribution -23.27
Covariance contribution 1.34
Combinations/Pair 1.09
Mean z-score -2.59
Structure conservation index 0.66
SVM decision value -0.02
SVM RNA-class probability 0.524594
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20624799 119 - 22407834
CGAUCCGUAGAUGUGGUGAAGGAUCAUGUAAUG-CCCGCCCUUCCUUGGCCAUUCUAUACCGAAAAUAACAAACAGUUGUCAUCCUGAAUGGCCCCUUUUGGUCGUUAACCGCGGCUCAC
.((.(((((((.(((((.(((((....((....-...))...))))).)))))))).....((..(((((.....)))))..))...(((((((......)))))))....)))).)).. ( -30.90)
>DroSec_CAF1 180278 120 - 1
CGAUCCUCAGAUGUGGUGGAGGAUCAUUACACGAUCCUCCCUACCUUGUCUAUUCUUUACCAAAAAUCACAAACAGUUAUCAUCCUGAAUGGCCCCUUUUGGUCGCUAACCGCGGCUCAC
.((.((..((((((((.((((((((.......))))))))))))...)))).......(((((((....((..(((........)))..)).....))))))).((.....)))).)).. ( -31.60)
>DroSim_CAF1 173301 120 - 1
CGAUCCUCAGAUAAGGUGGAGGAUCAUUACACGAUCCUCCCUACCUUGUCUAUUCUUUACCAAAAAUCACAAACAGUUAUCAUCCUGAAUGGCCCCUUUUGGUCGCUAACCGCGGCUCAC
.((.((..(((((((((((((((((.......))))))))..))))))))).......(((((((....((..(((........)))..)).....))))))).((.....)))).)).. ( -36.70)
>consensus
CGAUCCUCAGAUGUGGUGGAGGAUCAUUACACGAUCCUCCCUACCUUGUCUAUUCUUUACCAAAAAUCACAAACAGUUAUCAUCCUGAAUGGCCCCUUUUGGUCGCUAACCGCGGCUCAC
.((.((...((((.(((((((((((.......))))))))..))).))))........(((((((....((..(((........)))..)).....))))))).((.....)))).)).. (-21.93 = -23.27 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:41 2006