Locus 3137

Sequence ID 3R_DroMel_CAF1
Location 8,279,059 – 8,279,153
Length 94
Max. P 0.866549
window5085

overview

Window 5

Location 8,279,059 – 8,279,153
Length 94
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 77.44
Mean single sequence MFE -18.92
Consensus MFE -10.98
Energy contribution -11.42
Covariance contribution 0.44
Combinations/Pair 1.21
Mean z-score -1.99
Structure conservation index 0.58
SVM decision value 0.85
SVM RNA-class probability 0.866549
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8279059 94 + 27905053
UUUUUUUU-------------UUUUUGCCUAAUAAAUAGCAAAAAGCAAUGUGACGAUCGACUU-AAUAAGUUAUUCAGCGCAUUCUCCUGCAAUUCCGCGUACGCAU
........-------------(((((((..........)))))))((((((((..((..((((.-....))))..))..)))))).....((......))....)).. ( -16.40)
>DroSim_CAF1 3636 107 + 1
UUUUUUUUGUUUUUUUUUUUUGUUUUGCGUAAUAAAUAA-ACAAAGCAAUGUGACGAUCGACUUGAAUAAGUUAUUCAACGCAUUCUCCUGCAAUUCCGCGUACGCAU
......(((((((.(((.((((((......)))))).))-).)))))))(((((((...((.(((((((...))))))).(((......)))...))..))).)))). ( -18.70)
>DroEre_CAF1 3834 88 + 1
UUUU------------------UUUUGCGUAAUAAAUAA-ACAAAGCAAAGUGACGAUCGACUU-AAUAAGUCGUUCAUCGCAUUCUGCUGCAAUUCCGCGUACGCAC
....------------------...((((((........-....((((.((((.(((((((((.-....)))))...)))))))).))))((......)).)))))). ( -24.80)
>DroYak_CAF1 3939 87 + 1
UUU-------------------UUUUGCGUAAUAAAUAA-ACAAAGCAAAGUGACGAUCGACUU-AUUAAGUUGUUCAGCACAUUCUGCUGCAAUUCCGCGUACGCAC
...-------------------...((((((........-....(((((((((..((.(((((.-....))))).))..))).)).))))((......)).)))))). ( -20.00)
>DroAna_CAF1 3936 86 + 1
UUUC------------------UUUUGCGUAAUAAAUAA-ACAACAUAAA--CGCAAUCGAGUU-AAUACAUUUUUUCAUGCGUUCUCCUGCAAUUCCGCAUACGCAC
....------------------...((((((........-........((--((((...(((..-((....))..))).))))))....(((......))))))))). ( -14.70)
>consensus
UUUU__________________UUUUGCGUAAUAAAUAA_ACAAAGCAAAGUGACGAUCGACUU_AAUAAGUUAUUCAACGCAUUCUCCUGCAAUUCCGCGUACGCAC
.........................((((((...................(((..((..(((((....)))))..))..))).......(((......))))))))). (-10.98 = -11.42 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:58 2006