Locus 809

Sequence ID X_DroMel_CAF1
Location 2,250,636 – 2,250,780
Length 144
Max. P 0.996685
window1307 window1308

overview

Window 7

Location 2,250,636 – 2,250,740
Length 104
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 78.85
Mean single sequence MFE -29.93
Consensus MFE -24.49
Energy contribution -24.93
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -2.55
Structure conservation index 0.82
SVM decision value 2.73
SVM RNA-class probability 0.996685
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2250636 104 + 22224390
U-CGAAAAAACGAUUAUUGUG-GUAAUUGGCAUUUUGUUCAGUGUACAAUUGCACCACGUGCCGAUGGUGGAAACACUAUAAAUGUGGAAA-------UGGAAAUGCAAAUGC
.-........(((((((....-)))))))(((((((.(((.(((((....)))))(((((....((((((....))))))..)))))))).-------..)))))))...... ( -31.20)
>DroSec_CAF1 13500 106 + 1
UUUGGUAAAACAAUCAUUGCGGGUAAGCGGCAUUUUGUUCAGUGUACAAUUGCACCACGUGCCGAUGGAGGAAACACCAUAAAUGUGGAAA-------UGGAAAUGCAAAUGC
.(((......))).((((((......)).(((((((.(((.(((((....)))))(((((....((((.(....).))))..)))))))).-------..))))))).)))). ( -27.30)
>DroYak_CAF1 14528 101 + 1
------------CUCAAUGUGGCAACUUGGCCUUUUGUUCAGUGUACAAUUGCACCACGUGCCGAUGGUGGAAACACCAUAAAUGUGGAAAUGUAUAAUGGAAAUGCAAAUGU
------------.....((((((......))).....((((.((((((.((...((((((....((((((....))))))..)))))).)))))))).))))...)))..... ( -31.30)
>consensus
U__G__AAAAC_AUCAUUGUGGGUAAUUGGCAUUUUGUUCAGUGUACAAUUGCACCACGUGCCGAUGGUGGAAACACCAUAAAUGUGGAAA_______UGGAAAUGCAAAUGC
.............................(((((((...((((.....))))..((((((....((((((....))))))..))))))............)))))))...... (-24.49 = -24.93 +   0.45)

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 2,250,674 – 2,250,780
Length 106
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 75.21
Mean single sequence MFE -26.86
Consensus MFE -13.46
Energy contribution -13.02
Covariance contribution -0.44
Combinations/Pair 1.25
Mean z-score -2.32
Structure conservation index 0.50
SVM decision value 1.90
SVM RNA-class probability 0.982067
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2250674 106 + 22224390
AGUGUACAAUUGCACCACGUGCCGAUGGUGGAAACACUAUAAAUGUGGAAA-------UGGAAAUGCAAAUGCGAGGCGGGGCGAAGGGUGCAACAAUAACUGUAAUUAAACG
(((......(((((((.(((.(((((((((....))))))...........-------......(((....)))...))).)))...))))))).....)))........... ( -32.30)
>DroPse_CAF1 15859 85 + 1
---------GUACACCACGUGCCCAAGGUUGGCUGGCCG-------GUAAA-------UGCAAAUGCAAAUGAGAGG-----CGAAGGGUGCGACAAUAACUGUAAUUAAACG
---------........((..(((..((....)).(((.-------.((..-------(((....)))..))...))-----)...)))..)).................... ( -19.50)
>DroSec_CAF1 13540 106 + 1
AGUGUACAAUUGCACCACGUGCCGAUGGAGGAAACACCAUAAAUGUGGAAA-------UGGAAAUGCAAAUGCGAGGCGGGGCGAAGGGUGCAACAAUAACUGUAAUUAAAAG
(((......(((((((.(((.(((((((.(....).))))...........-------......(((....)))...))).)))...))))))).....)))........... ( -29.90)
>DroYak_CAF1 14556 108 + 1
AGUGUACAAUUGCACCACGUGCCGAUGGUGGAAACACCAUAAAUGUGGAAAUGUAUAAUGGAAAUGCAAAUGUGAGG-----CGAAGGGUGCAACAAUAACUGUAAUUAAACG
(((......(((((((...((((.((((((....))))))...........(((((.......))))).......))-----))...))))))).....)))........... ( -33.10)
>DroPer_CAF1 16395 85 + 1
---------GUACACCACGUGCCCAAGGUUGGCUGGCCG-------GUAAA-------UGCAAAUGCAAAUGAGAGG-----CGAAGGGUGCGACAAUAACAGUAAUUAAACG
---------........((..(((..((....)).(((.-------.((..-------(((....)))..))...))-----)...)))..)).................... ( -19.50)
>consensus
AGUGUACAAUUGCACCACGUGCCGAUGGUGGAAACACCAUAAAUGUGGAAA_______UGGAAAUGCAAAUGAGAGG_____CGAAGGGUGCAACAAUAACUGUAAUUAAACG
..........((((((.((..((...((((....))))....................((......)).......)).....))...)))))).................... (-13.46 = -13.02 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:17 2006