Locus 1232

Sequence ID 3L_DroMel_CAF1
Location 3,505,962 – 3,506,075
Length 113
Max. P 0.500000
window1934

overview

Window 4

Location 3,505,962 – 3,506,075
Length 113
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 91.93
Mean single sequence MFE -30.78
Consensus MFE -25.44
Energy contribution -25.88
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -1.27
Structure conservation index 0.83
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3505962 113 + 23771897
AUUCGCACGCCCCGAACCGAAUGGCACCGCAGAAUGUGAAGUGCACCGGACACACUCACUUAGGUAUUCAAACAUAGUCAGUAGGGUGUGCAAGGCUGU----ACAAAAUUUAAAUU
....((((((((....(((....(((((((.....)))..))))..)))....(((.(((...((......))..))).))).))))))))........----.............. ( -30.50)
>DroSec_CAF1 36333 112 + 1
AUUCGCACGCCCCGAACCGAAUGGCACCGCAGAAUGUGAAGUGCACCGGACACACUCACUUAGGUAUUCAAACACAAUCGGUAGGGUGUGC-----UGCAACCAGAAAUUUUGAAUU
....((((((((...(((((.(((((((((.....)))..))))...(((.((.((.....)))).))).....)).))))).))))))))-----..................... ( -32.20)
>DroSim_CAF1 36835 112 + 1
AUUCGCACGCCCCGAACCGAAUGGCACCGCAGAAUGUGAAGUGCACCGGACACACUCACUUAGGUAUUCAAACACAAUCAGUAGGGUGUGC-----UGCAACCAGAAAUUUGGAAUU
....((((((((...((.((.(((((((((.....)))..))))...(((.((.((.....)))).))).....)).)).)).))))))))-----.....((((....)))).... ( -28.40)
>DroEre_CAF1 52346 112 + 1
AUUCGCACGCCCCGAACCGAAUGGCACCGCAGAAUGUGAAGUGCACCGGACAUACUCACUUGGGUAUUCAAACACAGUCAGUAGGGUGUGC-----UGCAACUAGCAAUUUUAAAUU
....((((((((....(((....(((((((.....)))..))))..)))..((((((....))))))................))))))))-----(((.....))).......... ( -32.60)
>DroYak_CAF1 38136 111 + 1
AUUCGCACGCC-CGAACCGAAUGGCACCGCAGAAUGUGAAGUGCACCGGACACACUCACUUAGGUAUUCAAACACAGUCAGUAGGGUGUGC-----UGCAACUAGAAAUUUUAAAUU
....(((((((-(...(((....(((((((.....)))..))))..)))....(((.(((...((......))..))).))).))))))))-----..................... ( -30.20)
>consensus
AUUCGCACGCCCCGAACCGAAUGGCACCGCAGAAUGUGAAGUGCACCGGACACACUCACUUAGGUAUUCAAACACAGUCAGUAGGGUGUGC_____UGCAACCAGAAAUUUUAAAUU
....((((((((....(((....(((((((.....)))..))))..)))....(((.(((...((......))..))).))).)))))))).......................... (-25.44 = -25.88 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:42 2006