Locus 1002

Sequence ID X_DroMel_CAF1
Location 2,903,762 – 2,903,874
Length 112
Max. P 0.990571
window1622 window1623

overview

Window 2

Location 2,903,762 – 2,903,874
Length 112
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 73.73
Mean single sequence MFE -26.93
Consensus MFE -19.33
Energy contribution -19.33
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 0.72
SVM decision value 1.27
SVM RNA-class probability 0.938334
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2903762 112 + 22224390
AAAACACAGAAAACAGCAGAA--CUGAAAAGCAGCAAACAGUUGCAAACUGGUAUGCCCCACGUUGCCAAUGUUGCUGCCGCUCCUCGCUCGCCCUGCCCUGCUGUCCCCACCA
............(((((((..--.......(((((((.((...((((..(((......)))..))))...))))))))).((.....))..........)))))))........ ( -30.50)
>DroSec_CAF1 290488 91 + 1
A---------AAACAGUAGAA--CUGAAAAGCAGCAAACAGUUGCAAACUGGUAUGCCCCACGUUGCCGAUGUUGCUGCCGCUCCUCGCA----------UGCUGCCCCC--CC
.---------...(((((...--.......(((((((.((...((((..(((......)))..))))...))))))))).((.....)).----------))))).....--.. ( -24.90)
>DroYak_CAF1 298986 97 + 1
AAAACACAGA----------AAACAGAAAAGCAGCAAACAGUUGCAAACUGGUAUGCCCCACGUUGCUGAUGUUGCUGCCGUUCUUCG----CCCUG-CAUGCUGCCCCC--CG
......(((.----------....((((..(((((((.((...((((..(((......)))..))))...)))))))))..))))...----..)))-............--.. ( -25.40)
>consensus
AAAACACAGAAAACAG_AGAA__CUGAAAAGCAGCAAACAGUUGCAAACUGGUAUGCCCCACGUUGCCGAUGUUGCUGCCGCUCCUCGC___CCCUG_C_UGCUGCCCCC__CA
..............................(((((((.((...((((..(((......)))..))))...)))))))))................................... (-19.33 = -19.33 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 2,903,762 – 2,903,874
Length 112
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 73.73
Mean single sequence MFE -37.87
Consensus MFE -25.15
Energy contribution -25.27
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -1.95
Structure conservation index 0.66
SVM decision value 2.22
SVM RNA-class probability 0.990571
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2903762 112 - 22224390
UGGUGGGGACAGCAGGGCAGGGCGAGCGAGGAGCGGCAGCAACAUUGGCAACGUGGGGCAUACCAGUUUGCAACUGUUUGCUGCUUUUCAG--UUCUGCUGUUUUCUGUGUUUU
....(..(((((((((((...(....)(((((((((((..((((...((((..(((......)))..))))...))))))))))))))).)--))))))))))..)........ ( -47.80)
>DroSec_CAF1 290488 91 - 1
GG--GGGGGCAGCA----------UGCGAGGAGCGGCAGCAACAUCGGCAACGUGGGGCAUACCAGUUUGCAACUGUUUGCUGCUUUUCAG--UUCUACUGUUU---------U
..--.(((((((..----------.(((((((((((((((..((.((....))))..))....((((.....))))..))))))))))).)--)....))))))---------) ( -32.80)
>DroYak_CAF1 298986 97 - 1
CG--GGGGGCAGCAUG-CAGGG----CGAAGAACGGCAGCAACAUCAGCAACGUGGGGCAUACCAGUUUGCAACUGUUUGCUGCUUUUCUGUUU----------UCUGUGUUUU
((--(..(((.((...-....)----)..((((.((((((((((...((((..(((......)))..))))...)).)))))))).))))))).----------.)))...... ( -33.00)
>consensus
CG__GGGGGCAGCA_G_CAGGG___GCGAGGAGCGGCAGCAACAUCGGCAACGUGGGGCAUACCAGUUUGCAACUGUUUGCUGCUUUUCAG__UUCU_CUGUUUUCUGUGUUUU
...........................(((((((((((..((((...((((..(((......)))..))))...)))))))))))))))......................... (-25.15 = -25.27 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:07 2006