Locus 10229

Sequence ID 3R_DroMel_CAF1
Location 27,417,402 – 27,417,522
Length 120
Max. P 0.500000
window16298

overview

Window 8

Location 27,417,402 – 27,417,522
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.00
Mean single sequence MFE -33.37
Consensus MFE -28.12
Energy contribution -28.40
Covariance contribution 0.28
Combinations/Pair 1.12
Mean z-score -1.23
Structure conservation index 0.84
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27417402 120 + 27905053
CCCAACUGCAUUUGGAUGCACGACUCCUUCCAGAUGAGCACUAUUCCCUCAUUCCCGGAGCACAGGAACCAAAACAACACUGUCUUCGGGGGAUUCCUCAUGCGCAGUGCCCUGGAAAUU
.(((...(((((((.(((...((.(((.....((((((.........))))))(((((((.((((..............)))))))))))))).))..))).)).)))))..)))..... ( -34.14)
>DroSec_CAF1 19500 120 + 1
CCCAACUGCAUUUGGAUGCACGACUCCUCCCAGAUGAGCACUAUUCCCUCGUUCCCGGAGCACAGAAACCAAAACAACACUGUCUUCGGGGGAUUCCUCAUGCGCAGUGGCUUGGAGAUU
......(((((....)))))...((((..(((..((.(((...........(((((((((.((((..............)))))))))))))........))).)).)))...))))... ( -32.45)
>DroSim_CAF1 19323 120 + 1
CCCAACUGCAUUUGGAUGCACGACUCCUCCCAGAUGAGCACUAUUCCCUCGUUCCCGGAGCACAGAAACCAAAACAACACUGUCUUCGGAGGAUUCCUCAUGCGCAGUGCCCUGGAGAUU
.(((...(((((((.(((...((.((((((..((((((.........))))))...((((.((((..............)))))))))))))).))..))).)).)))))..)))..... ( -31.74)
>DroEre_CAF1 19873 120 + 1
CCCAACUGUGUUUGGAUGCACGACUCCUUCCAGAUGAGCACCAUUCCCUCAUUUCCAGAGCACAGGAAUCAAAACAACACUGUCUUUGGGGGAUUCCUCAUGCGCAGUGCCCAGGAAAUU
.((..(((((((((((............)))(((((((.........)))))))...))))))))............((((((...(((((....)))))...))))))....))..... ( -32.00)
>DroYak_CAF1 19740 120 + 1
CCCAACUGCAUUUGGAUGCACGACUCCUUCCAGAUGAGCACUAUUCCCUCCUUUCCGGAGCACAGGAAUCAAAACAACACUGUAUUUGGGGGAUUCCUCAUGCGCAGUGCUCUGGAGAUU
.....((.((((((((............)))))))))).............(((((((((((((((((((....(((........)))...)))))))........)))))))))))).. ( -36.50)
>consensus
CCCAACUGCAUUUGGAUGCACGACUCCUUCCAGAUGAGCACUAUUCCCUCAUUCCCGGAGCACAGGAACCAAAACAACACUGUCUUCGGGGGAUUCCUCAUGCGCAGUGCCCUGGAGAUU
.(((((((((((((((.(........).)))))))..(((....((((......((((((.((((..............)))))))))))))).......))))))))....)))..... (-28.12 = -28.40 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:52:04 2006