Locus 4235

Sequence ID 3L_DroMel_CAF1
Location 12,394,379 – 12,394,472
Length 93
Max. P 0.541861
window6555

overview

Window 5

Location 12,394,379 – 12,394,472
Length 93
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 82.86
Mean single sequence MFE -35.40
Consensus MFE -27.06
Energy contribution -27.75
Covariance contribution 0.69
Combinations/Pair 1.05
Mean z-score -1.42
Structure conservation index 0.76
SVM decision value 0.02
SVM RNA-class probability 0.541861
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12394379 93 - 23771897
AAGCUGAAGGCUGUGCGCGGUUGCAUGAUGCUGCCGAUCGAUUGGCUGCGAAUCGAUCAG--CGGCGCGGAGCG-----GCACCAGAGCGGCACCA-GAAU
...(((...(((((..(..(((((.((.((((((.((((((((.(...).)))))))).)--)))))))..)))-----))..)...)))))..))-)... ( -37.80)
>DroSec_CAF1 4999 82 - 1
AAGCAGAAGGCUGUGCGCGGUUGCAUGAUGCUGCCGAUCGAUUGGCUGCGAAUCGAUCAG--CGGCGCGGAGCG-----G-----------CACCA-GAAU
..((.....(((.((((((((.((.....)).)))((((((((.(...).))))))))..--..))))).))).-----)-----------)....-.... ( -32.30)
>DroSim_CAF1 4822 82 - 1
AGGCUGAAGGCUGUGCGCGGUUGCAUGAUGCUGCCGAUCGAUUGGCUGCGAAUCGAUCAG--CGGCGCGGAGCG-----G-----------CACCA-GAAU
.((.((...(((.((((((((.((.....)).)))((((((((.(...).))))))))..--..))))).))).-----.-----------)))).-.... ( -34.40)
>DroEre_CAF1 5251 92 - 1
AAGCUGAGGGCUGUGCGCGGUUGCAUGAUGCUGCCGAUCGAUUGGCUCCGAAUCGAUCAG--CGGCGCGGCGCGGAGCGGCACCGGA-----G-CG-GAAU
..(((..(((((((.((((.((((.....(((((.(((((((((....).)))))))).)--))))))))))))..))))).))..)-----)-).-.... ( -44.00)
>DroYak_CAF1 5256 81 - 1
AAGCUGAAGGCUGUGCGCGGUUGCAUGAUGCUGCCGAUCGAUUGGCUCCGAAUCGAUCAG--CGGCGCGGCGUGGA----------------A-CG-GAGU
...(((.(.((((((((((((.((.....)).)))(((((((((....).)))))))).)--).))))))).)...----------------.-))-)... ( -33.00)
>DroAna_CAF1 5299 85 - 1
CUGCUGAAGGCUGUGCGCGGUUGCAUGAUGCUGCCGAUCGAUUGGGCCCGAAUCGAUCAGAGCGGCCAGGAACG-----G-----------CACCAGGAAU
.(((((..((((((.(..(((.((.....)).)))(((((((((....).)))))))).).)))))).....))-----)-----------))........ ( -30.90)
>consensus
AAGCUGAAGGCUGUGCGCGGUUGCAUGAUGCUGCCGAUCGAUUGGCUCCGAAUCGAUCAG__CGGCGCGGAGCG_____G___________CACCA_GAAU
.........(((.((((((((.((.....)).)))((((((((.(...).))))))))......))))).)))............................ (-27.06 = -27.75 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:25 2006