Locus 1252

Sequence ID 2L_DroMel_CAF1
Location 3,310,572 – 3,310,692
Length 120
Max. P 0.767998
window2048

overview

Window 8

Location 3,310,572 – 3,310,692
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.26
Mean single sequence MFE -33.78
Consensus MFE -23.80
Energy contribution -25.76
Covariance contribution 1.96
Combinations/Pair 1.15
Mean z-score -2.07
Structure conservation index 0.70
SVM decision value 0.52
SVM RNA-class probability 0.767998
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3310572 120 - 22407834
ACCACAAAGCCCACCAUUAUGCCCGUGUUCAUGGUGAGCGUAAAAAAGGAGCACAGGCGACCUCGAAUGCUGGUGGGUUUUGUGAAAAAAAACUAUUAUCUGUCGAAAUUUAAUUUAGAU
..((((((((((((((.((((((.((((((....(........)....)))))).)))(....)..))).)))))))))))))).............(((((.............))))) ( -37.22)
>DroSec_CAF1 19565 116 - 1
ACCACGAAGCCCACCAUUAUGCCCGUGUUCAUGGUAAGCGUAAAAAAGGAGCAUAGGCGACCGCGAAUGCUGGUGGGUUUUAUGAAAAA-AUCUA---UUUGUCAAAAUUCAAUUUAGAU
..((..(((((((((.((((((((((....))))...))))))......(((((..((....))..))))))))))))))..)).....-(((((---.(((........)))..))))) ( -36.80)
>DroSim_CAF1 19469 119 - 1
ACCACGAAGCCCACCAUUAUGCCCGUGUUCAUGGUAAGCGUAAAAAAGGAGCAUAGGCGACCGCGAAUGCUGGUGGGUUUUGUGAAAAA-AUCUAUUAUUUGUCAAAAUUCAAUUUAGAU
..(((((((((((((.((((((((((....))))...))))))......(((((..((....))..)))))))))))))))))).....-(((((....(((........)))..))))) ( -41.10)
>DroEre_CAF1 27712 119 - 1
ACUAUGAAGCCCACCAUUAUACCCGUGUUCAUGGUGAGCGUAAAAAAGGAGCACAGGCGACCGCGAAUGCUGACGAGUUAGGGGAAAAA-UUCUGUUAUUCGGCGAAACUCAAUUUUGGU
....(((.((.((((((.(((....)))..)))))).))((........((((...((....))...))))..(((((.(.((((....-)))).).))))))).....)))........ ( -24.40)
>DroYak_CAF1 19753 119 - 1
ACCACGAAGCCCACCAUUAUUCCCGUGUUCAUGGUGAGCGUGAAAAAGGAGCACAGGCGACCGCGAAUGCUAGCGGGUUUUGAGAAAAA-AUCUAUUAUACGGCAAAAUCCAAUAAGGAA
.((.((((((((..........((...((((((.....))))))...))((((...((....))...))))...))))))))(((....-.))).......)).....(((.....))). ( -29.40)
>consensus
ACCACGAAGCCCACCAUUAUGCCCGUGUUCAUGGUGAGCGUAAAAAAGGAGCACAGGCGACCGCGAAUGCUGGUGGGUUUUGUGAAAAA_AUCUAUUAUUUGUCAAAAUUCAAUUUAGAU
..((((((((((((((...((((.((((((....(........)....)))))).))))...((....)))))))))))))))).................................... (-23.80 = -25.76 +   1.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:47 2006