Locus 4577

Sequence ID 2R_DroMel_CAF1
Location 14,957,975 – 14,958,113
Length 138
Max. P 0.942874
window7338 window7339

overview

Window 8

Location 14,957,975 – 14,958,078
Length 103
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 76.36
Mean single sequence MFE -27.83
Consensus MFE -21.90
Energy contribution -21.07
Covariance contribution -0.83
Combinations/Pair 1.29
Mean z-score -1.44
Structure conservation index 0.79
SVM decision value 1.21
SVM RNA-class probability 0.931534
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14957975 103 + 20766785
CCUACGUU--UCGAAUCGUGCACUUAAUUAGGUAUCUCUGCCAAU--CGAGGCUCUGAUGCUCAGUGAAUGUGCGCAUAGCAAA-GAAGAUGUGCUUAG-UUGGACUUG
((.((...--.......((((((...(((..(((((...(((...--...)))...)))))..)))....))))))..((((..-.......))))..)-).))..... ( -28.00)
>DroPse_CAF1 754 104 + 1
UCGCCAAUAAGCGAAU-GUGCACUUAAUUAGGUAUCUCUGCCAGA--CUAGGCAUUGAUACUCAGUAAAUGUGCGCAAAGAAAU-GAAGAUGUGCUCAA-AGGGAUUUG
((((......)))).(-((((((((.(((..(((((..((((...--...))))..)))))..))).)).))))))).......-..............-......... ( -29.60)
>DroGri_CAF1 8473 106 + 1
CCAGCAU---UUCAGUUGUGCAUUUAAUUAGGUAUCUAUUCCCAAAUUACGGAAUUGAUGCUCAGUAACUGUGCGCAAAUCAAUUGAAGCUGUGCUCAAAAUGAAUUUC
.((((..---(((((((((((((...(((..(((((.(((((........))))).)))))..)))....))))))).....))))))))))................. ( -28.70)
>DroEre_CAF1 522 103 + 1
CCUCCGUU--CCCAAUCGUGCACUUAAUUAGGUAUCUCUGCCAAU--CGAGGCUCUGAUGCUCAGUGAAUGUGCGCAUAGCAAA-GAAGAUGUGCUCAG-UUGGCCUUG
........--.(((((.((((((...(((..(((((...(((...--...)))...)))))..)))....))))))..((((..-.......))))..)-))))..... ( -28.90)
>DroAna_CAF1 1017 103 + 1
CUUUCCCA--UAUAGUCUCGCACUUAAUUAGGUAUCUCUGCCAUU--UGAGGCACUGAUGCUCAGUAAAUGUGCGAAAAUCAAA-GAAGAUGUGCUCAG-UUGGAUUGG
(..(((((--(((..((((((((((.(((..(((((..((((...--...))))..)))))..))).)).))))))........-))..))))).....-..)))..). ( -28.31)
>DroPer_CAF1 546 104 + 1
UCGCCGUUAAGCGAAU-GUGCACUUAAUUAGGUAUCUCUACCAGA--CUAGGCAUUGAUACUCAGUAAAUGUGCGCAAAGAAAU-GAAGAUGUGCUCAA-AGGGAUUUG
((.((.((.((((..(-((((((((.(((..(((((....((...--...))....)))))..))).)).))))))).(....)-.......)))).))-.)))).... ( -23.50)
>consensus
CCUCCGUU__UCGAAUCGUGCACUUAAUUAGGUAUCUCUGCCAAA__CGAGGCACUGAUGCUCAGUAAAUGUGCGCAAAGCAAA_GAAGAUGUGCUCAA_AUGGAUUUG
.................((((((...(((..(((((...(((........)))...)))))..)))....))))))................................. (-21.90 = -21.07 +  -0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 14,958,003 – 14,958,113
Length 110
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 77.79
Mean single sequence MFE -31.27
Consensus MFE -27.04
Energy contribution -25.60
Covariance contribution -1.44
Combinations/Pair 1.36
Mean z-score -1.76
Structure conservation index 0.86
SVM decision value 1.33
SVM RNA-class probability 0.942874
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14958003 110 + 20766785
GGUAUCUCUGCCAAUCGAGGCUCUGAUGCUCAGUGAAUGUGCGCAUAGCAAAGAAGAUGUGCUUAGUUGGACUUGCUAC--AUUCCAUGCGUGGCCACACGGUACAAUUUCG
((((((...(((......)))...))))))..(.(((((((.(((...(((..(((.....)))..)))....))))))--)))))...((((....))))........... ( -29.30)
>DroVir_CAF1 8691 106 + 1
GGUGUCUAUUUCCAAAACGAAAUUGACGCUCAGUAAAUGUGCGCAAAACAAUGAAGAUGUGCUCAAAUGUAUUUGUUAA--C----AUGCAAACGCAGACGGUACAAUUUCG
((((((.(((((......))))).)))))).......(((.......)))..((((.((((((....((..(((((...--.----..)))))..))...)))))).)))). ( -26.30)
>DroPse_CAF1 783 106 + 1
GGUAUCUCUGCCAGACUAGGCAUUGAUACUCAGUAAAUGUGCGCAAAGAAAUGAAGAUGUGCUCAAAGGGAUUUGCACU--A----AUGCGAAUCCAUACGGUACAAUUUCC
((((((..((((......))))..))))))..(((....)))..........((((.((((((.....(((((((((..--.----.)))))))))....)))))).)))). ( -33.60)
>DroYak_CAF1 548 110 + 1
GGUAUCUCUGCCAAUCGAGGCACUGAUGCUCAGUGAAUGUGCGCAUAGCAAAGAAGAUGUGCUUAGUUGGACUUGCUUC--AUUCCAUGCGAGGCCACACGGUACAAUUUCG
((((((..((((......))))..)))))).........(((.....)))..((((.((((((..(((((.(((((...--.......))))).))).)))))))).)))). ( -34.00)
>DroAna_CAF1 1045 112 + 1
GGUAUCUCUGCCAUUUGAGGCACUGAUGCUCAGUAAAUGUGCGAAAAUCAAAGAAGAUGUGCUCAGUUGGAUUGGCUUCUCUUACCUUGCCAGUCCACACGGUACAAUUUCG
((((((..((((......))))..))))))..(((....)))..........((((.((((((..(((((((((((............))))))))).)))))))).)))). ( -36.70)
>DroPer_CAF1 575 106 + 1
GGUAUCUCUACCAGACUAGGCAUUGAUACUCAGUAAAUGUGCGCAAAGAAAUGAAGAUGUGCUCAAAGGGAUUUGCACU--A----AUGCGAAUCCAUACGGUACAAUUUCC
((((....)))).......((((...(((...)))...))))..........((((.((((((.....(((((((((..--.----.)))))))))....)))))).)))). ( -27.70)
>consensus
GGUAUCUCUGCCAAACGAGGCACUGAUGCUCAGUAAAUGUGCGCAAAGCAAAGAAGAUGUGCUCAAAUGGAUUUGCUAC__A____AUGCGAAUCCACACGGUACAAUUUCG
((((((..((((......))))..))))))......................((((.((((((....(((.(((((............))))).)))...)))))).)))). (-27.04 = -25.60 +  -1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:33 2006