Locus 1088

Sequence ID 3R_DroMel_CAF1
Location 3,305,882 – 3,305,999
Length 117
Max. P 0.931487
window1765

overview

Window 5

Location 3,305,882 – 3,305,999
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.91
Mean single sequence MFE -16.68
Consensus MFE -14.71
Energy contribution -14.78
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -2.13
Structure conservation index 0.88
SVM decision value 1.21
SVM RNA-class probability 0.931487
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3305882 117 - 27905053
AUCAACCACCAGGCAGUCAGCAACAUUUUUGCCACGCCAAAAACUUUUCUCAUUACGAAAUCGUUGCAACAAA-AAGUAAACAACACAGA-AAUGCCUCCCCUUGCCCA-AAUGCAACAA
..........(((((.((.(((((.((((((......))))))..((((.......))))..)))))......-..((.....))...))-..)))))....((((...-...))))... ( -17.40)
>DroSec_CAF1 9918 116 - 1
AUCAAC---CAGGCAGUCAGCAACAUUUUUGCCACGCCAAAAACUUUUCUCAUUACGAAAUCGUUGCAACAAA-AAGUAAACAACACAGAAAAUGCCACCCCUCUCCCAAAAUGCAACAA
......---..((((.((.(((((.((((((......))))))..((((.......))))..)))))......-..((.....))...))...))))....................... ( -16.70)
>DroSim_CAF1 14047 116 - 1
AUCAAC---CAGGCAGUCAGCAACAUUUUUGCCACGCCAAAAACUUUUCUCAUUACGAAAUCGUUGCAACAAA-AAGUAAACAACACAGAAAAUGCCACCCCUCUCCCAAAAUGCAACAA
......---..((((.((.(((((.((((((......))))))..((((.......))))..)))))......-..((.....))...))...))))....................... ( -16.70)
>DroYak_CAF1 20172 115 - 1
AUCAAC---CAGGCAGUCAGCAACAUUUUCGCCAUGCCAAAAACUUUUCUCAUUACGAAAUCGUUGCAACAAAAAAGUAAACAACACUGA-AAUGCUUCCCCUUUCCCA-AAUGCAACAA
......---.(((((.((((((((..(((((..(((..(((....)))..)))..)))))..))))).........((.....))..)))-..)))))...........-.......... ( -15.90)
>consensus
AUCAAC___CAGGCAGUCAGCAACAUUUUUGCCACGCCAAAAACUUUUCUCAUUACGAAAUCGUUGCAACAAA_AAGUAAACAACACAGA_AAUGCCACCCCUCUCCCA_AAUGCAACAA
...........((((.((.(((((.((((((......))))))..((((.......))))..))))).........((.....))...))...))))....................... (-14.71 = -14.78 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:20 2006