Locus 590

Sequence ID X_DroMel_CAF1
Location 1,660,875 – 1,660,969
Length 94
Max. P 0.977884
window940 window941

overview

Window 0

Location 1,660,875 – 1,660,969
Length 94
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 79.38
Mean single sequence MFE -40.90
Consensus MFE -25.35
Energy contribution -25.13
Covariance contribution -0.22
Combinations/Pair 1.13
Mean z-score -1.84
Structure conservation index 0.62
SVM decision value 0.24
SVM RNA-class probability 0.650801
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1660875 94 + 22224390
---------UGGAGCAGGAGCAGCACCAGGACGAG--CCAGGACCAGG--CAGGCACCAAGACCACAGCCAAGUCCAGCUCCCGGUC------CAGCUCCUGGUCCUGGUCAG
---------.(((.(((((((.(.(((.((..(((--(..((((..((--(.((........))...)))..)))).))))))))).------).))))))).)))....... ( -41.00)
>DroSec_CAF1 25785 94 + 1
---------UGGAGCAGAAGCAGCACCAGGACGAG--CCAGGACCAGG--CAGGCACCAAGACCACAGCCAAGUCCAGCUCCCGGUC------CAGCUCCUGGUCCACGUUAG
---------((((.(((.(((.(.(((.((..(((--(..((((..((--(.((........))...)))..)))).))))))))).------).))).))).))))...... ( -35.10)
>DroYak_CAF1 26370 113 + 1
UCCAGGCCCAGGAGCAGGAGCAGCACCAGGACGAGGGCCAUGGGCAGGACCAGGCACCAAGACCCCAGUCAAGUCCAGCUCCAGCUCCGGUUUCGGCUCCUCGUCCAGGUCAG
....((((..(((..((((((...(((.((((..(((((.(((......)))))).))..(((....)))..))))(((....)))..)))....))))))..))).)))).. ( -46.60)
>consensus
_________UGGAGCAGGAGCAGCACCAGGACGAG__CCAGGACCAGG__CAGGCACCAAGACCACAGCCAAGUCCAGCUCCCGGUC______CAGCUCCUGGUCCAGGUCAG
..........(((.(((((((.......((.......))..((((.((....(((............))).((.....)))).))))........))))))).)))....... (-25.35 = -25.13 +  -0.22) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,660,875 – 1,660,969
Length 94
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 79.38
Mean single sequence MFE -50.50
Consensus MFE -30.98
Energy contribution -31.10
Covariance contribution 0.12
Combinations/Pair 1.11
Mean z-score -2.72
Structure conservation index 0.61
SVM decision value 1.80
SVM RNA-class probability 0.977884
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1660875 94 - 22224390
CUGACCAGGACCAGGAGCUG------GACCGGGAGCUGGACUUGGCUGUGGUCUUGGUGCCUG--CCUGGUCCUGG--CUCGUCCUGGUGCUGCUCCUGCUCCA---------
.......(((.(((((((.(------.(((((((((((((((.(((...(((......))).)--)).))))).))--)...))))))).).))))))).))).--------- ( -51.30)
>DroSec_CAF1 25785 94 - 1
CUAACGUGGACCAGGAGCUG------GACCGGGAGCUGGACUUGGCUGUGGUCUUGGUGCCUG--CCUGGUCCUGG--CUCGUCCUGGUGCUGCUUCUGCUCCA---------
......((((.(((((((.(------.(((((((((((((((.(((...(((......))).)--)).))))).))--)...))))))).).))))))).))))--------- ( -48.30)
>DroYak_CAF1 26370 113 - 1
CUGACCUGGACGAGGAGCCGAAACCGGAGCUGGAGCUGGACUUGACUGGGGUCUUGGUGCCUGGUCCUGCCCAUGGCCCUCGUCCUGGUGCUGCUCCUGCUCCUGGGCCUGGA
....((.((.(.((((.(((....))).((.(((((.(.(((.(((.((((((.(((.((........))))).)))))).)))..))).).))))).)))))).).)).)). ( -51.90)
>consensus
CUGACCUGGACCAGGAGCUG______GACCGGGAGCUGGACUUGGCUGUGGUCUUGGUGCCUG__CCUGGUCCUGG__CUCGUCCUGGUGCUGCUCCUGCUCCA_________
.......(((.(((((((........(((((((....(((((.(((....)))..))).))....)))))))..((.......)).......))))))).))).......... (-30.98 = -31.10 +   0.12) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:41 2006