Locus 4984

Sequence ID 3R_DroMel_CAF1
Location 13,117,996 – 13,118,099
Length 103
Max. P 0.545104
window8150

overview

Window 0

Location 13,117,996 – 13,118,099
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.68
Mean single sequence MFE -27.43
Consensus MFE -13.23
Energy contribution -15.03
Covariance contribution 1.81
Combinations/Pair 1.07
Mean z-score -2.58
Structure conservation index 0.48
SVM decision value 0.02
SVM RNA-class probability 0.545104
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13117996 103 + 27905053
--------------CAAAAAAUUAGGAGCUGAAUAUGUUUUAGUGGCGCUACAGUGCUGACAGUUCUGUAAAAUAUA--CGC-CGCGCUCAUAAUUUAUAUCAGUUUUGUUAACUCAACG
--------------..........((((((((.((((..(((..((((((((((.((.....)).))))).......--...-.)))))..)))..))))))))))))............ ( -23.10)
>DroVir_CAF1 134538 104 + 1
------------AACAAAAAACUGAGAGCCAAAUAUGUUCUAGUGGCGCAACUGUGCUGACAGUUGUAUAAAAUAUA--CGC--GCUCUCAUAAUUUAUAUCAGUUUUCCUAACUGAACG
------------..........(((((((....((((((.((.....((((((((....)))))))).)).))))))--...--))))))).........((((((.....))))))... ( -27.00)
>DroGri_CAF1 134488 107 + 1
-----AAGAAAAAGA----AGGCGAGAGCCAAAUAUGUUUUAGUGGCGCAACUGUGCUGACAGUUGUGAAAAAUAUA--CGC--GCUCUCAUAAUUUAUAUCAGUUUUGUUAACUGAACG
-----..........----....((((((....((((((((.....(((((((((....))))))))).))))))))--...--))))))..........((((((.....))))))... ( -31.00)
>DroWil_CAF1 135521 106 + 1
--------------CAAAAAAUUAGAAGCUGAAUAUGUUUUAGUGUCGCAACUGUGCUGACAGUUGUAUAAAAUAUAUACGCGCGCUCUCAUAAUUUAUAUCAGUUUUGUUAACUCAACG
--------------..........((((((((.((((..((((((.(((((((((....))))))(((((.....)))))))))))).....))..))))))))))))............ ( -24.60)
>DroMoj_CAF1 149178 116 + 1
AAGCAAAGAAGAAGAAGAAAACUGAGAGUCGAAUAUGUUUUAGUGGCGCAACUGUGCUGACAGUUGUGUAAAAUAUA--CGC--GCUCUCAUAAUUUAUAUCAGUUUUGUUAACUGAACG
......................((((((.((..((((((((....((((((((((....))))))))))))))))))--..)--))))))).........((((((.....))))))... ( -34.30)
>DroPer_CAF1 204651 106 + 1
-----------CAGAAAAAAAUUAGAAGCUGAAUAUGUUUUAGUGGCGCAACUGCGCUGACAGUUGUGUAAAAUAUA--CGC-UACGCUCAUAAUUUAUAUCAGUUUUGUUAACUCAACG
-----------.............((((((((.((((..((((((((((....))))).)).((.(((((.....))--)))-.)).....)))..))))))))))))............ ( -24.60)
>consensus
____________AGAAAAAAAUUAAGAGCCGAAUAUGUUUUAGUGGCGCAACUGUGCUGACAGUUGUGUAAAAUAUA__CGC__GCUCUCAUAAUUUAUAUCAGUUUUGUUAACUCAACG
........................(((((....(((((((((....(((((((((....)))))))))))))))))).......))))).............((((.....))))..... (-13.23 = -15.03 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:35 2006