Locus 4616

Sequence ID X_DroMel_CAF1
Location 12,079,942 – 12,080,052
Length 110
Max. P 0.940456
window7588

overview

Window 8

Location 12,079,942 – 12,080,052
Length 110
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 87.87
Mean single sequence MFE -19.77
Consensus MFE -15.10
Energy contribution -15.35
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.46
Structure conservation index 0.76
SVM decision value 1.29
SVM RNA-class probability 0.940456
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12079942 110 + 22224390
AGCUACCGACAGCCGCCACACACGGAAGCCAUAAAAACUUAUGGCAAAAUAUAUAAAAAUUCACCCUU-UUUAUUGUGGCAAACAAGGAGAAGGAGAAA-AAAAUAAAAUGC
............(((.......)))..(((((((....)))))))..............(((..((((-(((.((((.....)))).))))))).))).-............ ( -21.60)
>DroVir_CAF1 20761 95 + 1
---------------CCACACACGGAAGCCAUAAAAACUUAUGGCGAAAUA--UAAAAAUGCACCCUUUUUUAUUGUGGCAAACAACGAAAACGAGAAAUAAAAUAAAAUGC
---------------(((((.......(((((((....))))))).....(--((((((........))))))))))))................................. ( -15.90)
>DroSec_CAF1 15752 109 + 1
AGCUACCGACAGCCGCCACACACGGAAGCCAUAAAAACUUAUGGCAAAAUAUAUAAAAAUUCACCCUU-UUUAUUGUGGCAAACAAGGAGAACGAGAAA--AAAUAAAAUGC
.(((......))).((((((.......(((((((....))))))).......(((((((.......))-)))))))))))...................--........... ( -21.20)
>DroAna_CAF1 13391 111 + 1
AGAUCCCGACAGCCGCCACACACGGAAGCCAUAAAAACUUAUGGCAAAAUAUAUAAAAAUUCACCCUU-UUUAUUGUGGCAAACAACGAGAACGAGAAAUAAAAUAAAAUGC
.(.((.((......((((((.......(((((((....))))))).......(((((((.......))-)))))))))))......)).)).)................... ( -20.40)
>consensus
AGCUACCGACAGCCGCCACACACGGAAGCCAUAAAAACUUAUGGCAAAAUAUAUAAAAAUUCACCCUU_UUUAUUGUGGCAAACAACGAGAACGAGAAA_AAAAUAAAAUGC
..............((((((.......(((((((....)))))))........((((.(........).)))).))))))................................ (-15.10 = -15.35 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:29 2006