Locus 1691

Sequence ID 3R_DroMel_CAF1
Location 4,858,343 – 4,858,435
Length 92
Max. P 0.791411
window2788

overview

Window 8

Location 4,858,343 – 4,858,435
Length 92
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 81.40
Mean single sequence MFE -20.93
Consensus MFE -10.57
Energy contribution -11.02
Covariance contribution 0.45
Combinations/Pair 1.13
Mean z-score -2.86
Structure conservation index 0.50
SVM decision value 0.59
SVM RNA-class probability 0.791411
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4858343 92 - 27905053
AAGAGCAAAAACCGAAAAAGUUUGAGUUAGUUUAAAACAAAAAGCUAAUGAAUA-AAUGCUCACCCAGAACACGCCCAGU-----UUG------CGAUUAUAAU
..(((((.....((((....)))).((((((((........)))))))).....-..)))))..........(((.....-----..)------))........ ( -15.00)
>DroSec_CAF1 38857 92 - 1
AAGAGCAAAAAGCGAAAAAGUUUGAGUUAGUUUAAAACAAAAAGCUAAUGAAUA-AAUGCUCGCCCAGAGCACGCCUAGU-----UUG------CCAUUAUAAU
..(.(((((..(((.....(((((.((((((((........))))))))...))-)))((((.....)))).)))....)-----)))------))........ ( -21.40)
>DroSim_CAF1 40874 92 - 1
AAGAGCAAAAAGCGAAAAAGUUUGAGUUAGUUUAAAACAAAAAGCUAAUGAAUA-AAUGCUCGCCCAGAGCACGCCCAGU-----UUG------CCAUUAUAAU
..(.(((((..(((.....(((((.((((((((........))))))))...))-)))((((.....)))).)))....)-----)))------))........ ( -21.40)
>DroEre_CAF1 39125 92 - 1
AAGAGCAAAAAGCGAAAAAGUAUGAGUUAGUUUAAAACAAAAAGCUAAUGACUGAAAUGCUCGC-CAGAGCACGCCCAGU-----UUG------CUAUUAUAAU
...((((((..(((....(((....((((((((........)))))))).)))....(((((..-..))))))))....)-----)))------))........ ( -24.00)
>DroYak_CAF1 39697 92 - 1
AAGAGCAAAAAGCGAAAAAGUAUGAGUUAGUUUAAAACAAAAAGCUAAUGACUAAAAUGCUUGC-CAGAGCACGCCCAGU-----UUG------CUAUUAUAAU
...((((((..(((....(((....((((((((........)))))))).)))....(((((..-..))))))))....)-----)))------))........ ( -21.50)
>DroAna_CAF1 40318 101 - 1
UAAAGCAGAAAGCAUUU-UAUUUGCGAUUGUUUCAAGCAAAAAGCAAAUGAUUC-AACGCUCCA-AAAAGCACGCAUAGCAUAGCUUGGAGAGCUCAUUGAAAU
....((.....))...(-(((((((..((((.....))))...))))))))(((-((.(((((.-..((((..((...))...)))).).))))...))))).. ( -22.30)
>consensus
AAGAGCAAAAAGCGAAAAAGUUUGAGUUAGUUUAAAACAAAAAGCUAAUGAAUA_AAUGCUCGC_CAGAGCACGCCCAGU_____UUG______CCAUUAUAAU
...........(((...........((((((((........)))))))).........((((.....)))).)))............................. (-10.57 = -11.02 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:59 2006