Locus 9147

Sequence ID 3R_DroMel_CAF1
Location 24,399,449 – 24,399,549
Length 100
Max. P 0.653566
window14636

overview

Window 6

Location 24,399,449 – 24,399,549
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.05
Mean single sequence MFE -25.79
Consensus MFE -11.70
Energy contribution -12.84
Covariance contribution 1.14
Combinations/Pair 1.12
Mean z-score -2.18
Structure conservation index 0.45
SVM decision value 0.25
SVM RNA-class probability 0.653566
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24399449 100 + 27905053
AAAAUAAGCUGUGACAAAUGGCUUAAUUUAGUUGU-------CAGUUCUCGGGCCAGAGGGCCAUAAAGG-GGCAGCGACAAUUGUUUAACAU-----------GUAAA-AAUAUUGGCA
....((((((((.....)))))))).....(((((-------(........((((....)))).......-))))))..((((..((((....-----------.))))-...))))... ( -24.76)
>DroVir_CAF1 213649 98 + 1
AAAAUAAGCUGUGACAAAUGGCUUAAUUUAGUUGU-------CAAAACGCAAGCGACGU--------------AGCCAACGAUUGUUUAACAUGUUUUAACAUAGUAAA-AAUAUUGGCA
....((((((((.....)))))))).....(((((-------..........)))))..--------------.(((((......((((..((((....))))..))))-....))))). ( -19.80)
>DroSim_CAF1 230151 101 + 1
AAAAUAAGCUGUGACAAAUGGCUUAAUUUAGUUGU-------CAGUCCUCGGGCCAGAGGGCCAUAAAGG-GGCAGCGACAAUUGUUUAACAU-----------GUAAAAAAUAUUGGCA
....((((((((.....))))))))...(((((((-------(.(((((..((((....)))).....))-)))...))))))))........-----------................ ( -27.40)
>DroEre_CAF1 236017 100 + 1
AAAAUAAGCUGUGACAAAUGGCUUAAUUUAGUUGU-------CAGUGCUCGGGCCAGAGGGCCAUAAAGG-GGCAGCGACAAUUGUUUAACAU-----------GUAAA-AAUAUUGGCA
....((((((((.....))))))))...(((((((-------(..(((((.((((....))))......)-))))..))))))))........-----------.....-.......... ( -27.80)
>DroYak_CAF1 229945 108 + 1
AAAAUAAGCUGUGACAAAUGGCUUAAUUUAGUUGUCAGUUGUCAGUUCUCGGGCCAGAGGGCCAUAAAGGGGGCAGCGACAAUUGUUUAACAU-----------GUAAA-AAUAUUGGCA
....((((((((.....)))))))).....((((.((((((((.((((((.((((....)))).....))))))...))))))))..))))..-----------.....-.......... ( -32.40)
>DroMoj_CAF1 189501 98 + 1
AAAAUAAGCUGUGACAAAUGGCUUAAUUUAGUUGU-------CAAAGCGCAGCCAACGG--------------CGGCAGCAAUUGUUUAACAUGUUUUAACAUAGUAAA-AAUAUUGGCA
.......(((.((((((.(((......))).))))-------)).)))((.(((.....--------------.)))..((((..((((..((((....))))..))))-...)))))). ( -22.60)
>consensus
AAAAUAAGCUGUGACAAAUGGCUUAAUUUAGUUGU_______CAGUGCUCGGGCCAGAGGGCCAUAAAGG_GGCAGCGACAAUUGUUUAACAU___________GUAAA_AAUAUUGGCA
....((((((((.....)))))))).....(((((................((((....))))............)))))........................................ (-11.70 = -12.84 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:27:38 2006