Locus 3004

Sequence ID 3L_DroMel_CAF1
Location 8,648,786 – 8,648,884
Length 98
Max. P 0.618228
window4688

overview

Window 8

Location 8,648,786 – 8,648,884
Length 98
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 79.28
Mean single sequence MFE -19.92
Consensus MFE -13.53
Energy contribution -13.82
Covariance contribution 0.28
Combinations/Pair 1.19
Mean z-score -1.28
Structure conservation index 0.68
SVM decision value 0.17
SVM RNA-class probability 0.618228
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8648786 98 + 23771897
AAAACAAC--AAAUAA-UAUAUGAAAAACGUGAAAAUCCAACGCUGCACGUAGAAGCCAUCAAGCUGAAUCUAAGCGUCCGGCGGAGCACGUGUGAUCCAC
........--......-..........(((((....(((...((((.((((((((((......)))...)))..)))).))))))).)))))......... ( -20.60)
>DroSec_CAF1 36769 98 + 1
AAAACAAC--AAAUAA-UAUAUGAAAAACUUGAAAAUCCAACGCUGCACGUAGAAGCCAUCAAGCUGAAUCUAAGCUUCCGGCGGAGCACGUGUGAUCCAC
........--......-............................((((((.(..(((...(((((.......)))))..)))....)))))))....... ( -17.00)
>DroSim_CAF1 34185 98 + 1
AAAACAAC--AAAUAA-UAUAUGAAAAACGUGAAAAUCCAACGCUGCACGUAGAAGCCAUCAAGCUGAAUCUAAGCGUCCGGCGGAGCACGUGUGAUCCAC
........--......-..........(((((....(((...((((.((((((((((......)))...)))..)))).))))))).)))))......... ( -20.60)
>DroEre_CAF1 38142 92 + 1
AAAACAAAA---------AUCUGAAAAACGUGAAAAUCCAUCGCUGCACGUAGAAGCCAUCAAACUGAAUCUAAGCGUUCGGCGGAGCACGUGUGAUCCAC
.........---------.........(((((....(((...((((.(((((((...((......))..)))..)))).))))))).)))))......... ( -17.70)
>DroWil_CAF1 48152 82 + 1
-------------------UAAAAAAAACGUGAACUGCCACUUGCCCACGUAGUUGCCAUUAAUGUGAAUCUAAGCAUUGAUCGGCGCACGUGUAUAACAC
-------------------........(((((((((((...........))))))(((((((((((........)))))))).))).)))))......... ( -21.60)
>DroYak_CAF1 37855 101 + 1
AAAACAUAAUACAUAAGUAUGUGUAAAACGUGAAAAGCCAGCGCCGCACGUAGAAGCCAUCAAACUGAAUCUAAGCGUCCGGCGGAGCACGUGUGAUCCAC
....(((..((((((....))))))..(((((....(((.((((.((........))..((.....))......))))..)))....))))))))...... ( -22.00)
>consensus
AAAACAAC__AAAUAA_UAUAUGAAAAACGUGAAAAUCCAACGCUGCACGUAGAAGCCAUCAAGCUGAAUCUAAGCGUCCGGCGGAGCACGUGUGAUCCAC
...........................(((((....(((...((((.(((((((...((......))..)))..)))).))))))).)))))......... (-13.53 = -13.82 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:11 2006