Locus 5555

Sequence ID 3R_DroMel_CAF1
Location 14,691,667 – 14,691,766
Length 99
Max. P 0.500000
window9055

overview

Window 5

Location 14,691,667 – 14,691,766
Length 99
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.31
Mean single sequence MFE -23.05
Consensus MFE -14.90
Energy contribution -14.93
Covariance contribution 0.03
Combinations/Pair 1.23
Mean z-score -1.26
Structure conservation index 0.65
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14691667 99 - 27905053
UUAGCAUCUUAAAUUUUUAUUGCAAGGAAAGCGGAAUCUUUAGUAAUUGCUCUCUAGGCGCUCAUAAA--AAAUGUGUAGCCAGGUAAGCAGAAG------AAGAA-----------G--
......((((.........(((((((((........))))).))))(((((..((.(((...((((..--...))))..))).))..))))))))------)....-----------.-- ( -20.30)
>DroVir_CAF1 121509 94 - 1
CGGGCGUCUUAAAUUUUUAUUGCAAGAAAAGCGGAAUCCUUGGUAAUUGCUCUCUGGGCGCACAUAAA-AAGAUGUGUAGCCAAGUAAGCAGAAG-------------------------
...((.((((.(((....)))..))))...))..............(((((..((.(((((((((...-...)))))).))).))..)))))...------------------------- ( -23.00)
>DroGri_CAF1 104089 105 - 1
UGGGCGUCUUAAAUUUUUAUUGCAAGAAAAGCGGAAUCCUUGGUAAUUGCUCUCUGGGCGCACAUAAA-AAGAUGUGUAGCCAAGUAAGCAGAAG------AAGCAG--------AAGAA
...((.((((.........((((.......))))............(((((..((.(((((((((...-...)))))).))).))..))))))))------).))..--------..... ( -25.50)
>DroWil_CAF1 125457 118 - 1
UUGGCAUCUUAAAUUUUUAUUGCAAGGAAAGAGGAAUCUUUAAUAAUUGCCCUCUGGGCGCACAUAAAGAAAAUGUGUAGCAAAGUAAGCAGAAGUACAACAAGAAGAAAGCACAAAG--
(((((.((((.........((((....(((((....))))).......((((...))))((((((.......)))))).)))).(((........)))......))))..)).)))..-- ( -21.90)
>DroYak_CAF1 111700 99 - 1
UUAGCAUCUUAAAUUUU---UGCAAGGAAAGCGGAAUCUUUAGUAAUUGCUCUCCUGGCGCUCAUAAA--AAAUGUGUAGCCAGGUAAGCAGAAG------AAGAAG--------UAG--
...((.((((......(---((((((((........))))).))))(((((..((((((...((((..--...))))..))))))..)))))...------)))).)--------)..-- ( -28.00)
>DroMoj_CAF1 119101 93 - 1
-CGGAGUCUUAAAUUUUUAUUGCACGAAAAGCUGAAUCCUUGGUAAUUGCUCUCCGGGCGCAUAUAAA-AAGAUGUGUAGCCAAGUAAGCAGAAG-------------------------
-.(((.((.....(((((.......)))))...)).))).......(((((..(..(((((((((...-...)))))).)))..)..)))))...------------------------- ( -19.60)
>consensus
UUGGCAUCUUAAAUUUUUAUUGCAAGAAAAGCGGAAUCCUUAGUAAUUGCUCUCUGGGCGCACAUAAA_AAAAUGUGUAGCCAAGUAAGCAGAAG______AAGAA___________G__
..((..(((....(((((.......)))))..)))..)).......(((((..((.(((((((((.......)))))).))).))..)))))............................ (-14.90 = -14.93 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:57 2006