Locus 1870

Sequence ID 3R_DroMel_CAF1
Location 5,364,944 – 5,365,038
Length 94
Max. P 0.628690
window3074

overview

Window 4

Location 5,364,944 – 5,365,038
Length 94
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 80.33
Mean single sequence MFE -30.80
Consensus MFE -21.28
Energy contribution -21.53
Covariance contribution 0.25
Combinations/Pair 1.14
Mean z-score -1.36
Structure conservation index 0.69
SVM decision value 0.20
SVM RNA-class probability 0.628690
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5364944 94 + 27905053
UGCUGCUGGUCGACGCCGUCGAAGUAGUCGGAGGCAUUGCCGCGGCAAAUUGGGCAGGUGCGAUUCGACUGG------UAGGUAAUGUAGGUAAUUGAAU
..((((..((((((((((((.((...((((..(((...))).))))...)).))).))))....)))))..)------)))................... ( -33.30)
>DroSec_CAF1 128 86 + 1
UGCUGCUGGUCGGCGCCGUCGAAGUAGUCGGAGGCAUUGCCGCGGCAAAUUGGGCACGUGCGAUUCGACUGG------UAGGUA--------AAUUGAGU
..((((..(((((.(((..(((.....)))..)))(((((.(((((.......)).)))))))))))))..)------)))...--------........ ( -32.90)
>DroSim_CAF1 128 92 + 1
UGCUGCUGGUCGGCGCCGUCGAAGUAGUCGGAGGCAUUGCCGCGGCAAAUUGGGCAGGUGCGAUUCGACUGUAAAUUCGAGGUA--------AAUUGAGU
.((((.....))))(((.(((((.((((((((.((((((((.(((....))))))).))))..))))))))....)))))))).--------........ ( -32.30)
>DroEre_CAF1 174 86 + 1
UGCUGCUGGUCGGCGCCGUCGAAGUAGUCGGAGGCAUUUCCACGGCAAAUUGGGCAAGUGCGAUUGGACUGG------UAAGCA--------AAUAGGGC
((((((..(((...(((((.(((((.((.....))))))).))))).(((((.(....).))))).)))..)------).))))--------........ ( -30.00)
>DroWil_CAF1 209 93 + 1
UGCUGCUGAUCGACACCAUCAAAGUAAUCCGAAGCAUUGCCACGGCAUAUGGGGCAUGUGCGAUUGGACUGC------AGACCA-AAAGGAAAAUAAAUU
..((((((((.......))))......(((((.((((((((.((.....)).)))).))))..)))))..))------)).((.-...)).......... ( -22.20)
>DroYak_CAF1 2726 86 + 1
UGCUGCUGGUCGGCGCCGUCGAAGUAGUCGGAGGCAUUGCCACGGCAGAUUGGGCAGGUGCGAUUCGACUGG------UGGGCA--------AAUGGAUU
(((..(..((((((((((((.((...((((..(((...))).))))...)).))).)))))....))))..)------..).))--------........ ( -34.10)
>consensus
UGCUGCUGGUCGGCGCCGUCGAAGUAGUCGGAGGCAUUGCCACGGCAAAUUGGGCAGGUGCGAUUCGACUGG______UAGGCA________AAUUGAGU
...((((..(((((...)))))..((((((((.((((((((.(((....))))))).))))..)))))))).........))))................ (-21.28 = -21.53 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:33 2006