Locus 729

Sequence ID 2L_DroMel_CAF1
Location 2,120,025 – 2,120,135
Length 110
Max. P 0.937570
window1198 window1199

overview

Window 8

Location 2,120,025 – 2,120,135
Length 110
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 86.15
Mean single sequence MFE -40.50
Consensus MFE -29.23
Energy contribution -29.16
Covariance contribution -0.06
Combinations/Pair 1.11
Mean z-score -2.15
Structure conservation index 0.72
SVM decision value 0.87
SVM RNA-class probability 0.871143
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2120025 110 + 22407834
UUCCAUCGAAGGGUGGUAUCUCUAGUCAG-CAGGGGGGAGGGUGGUUGGGUUUUGAAUUUCCCACCCAGACGG-GGGACAAACAUUUUCCCCACCGACUCGAUGGAACAUUU
(((((((((((((......)))).(((..-..((((((((((((..((((..........))))(((....))-).......)))))))))).))))))))))))))..... ( -43.10)
>DroSec_CAF1 120372 105 + 1
UUCCAUCGCAGGGUGGUAU--CUAGUCAC-GAGGGGGGAGGG---GUGGUUUUUGGAUUUCCCACCCAGACGG-GGGACAAACAUUUUCCCCACCGACUCGAUGGAACAUUU
((((((((.((..((((..--...(((..-..(((((((((.---............)))))).))).)))((-((((........)))))))))).))))))))))..... ( -39.72)
>DroSim_CAF1 120158 105 + 1
UUCCAUCGCAGGGUGGUAU--CUAGUCAG-GAGGGGGGAGGG---AUGGGUUUUGGAUUUCCCAACCAGACGG-GGGAGAAACAUUUUCCCCACCGACUCGAUGGAACAUUU
((((((((.((..((((..--...(((.(-(..(((..(..(---(......))...)..)))..)).)))((-((((((....)))))))))))).))))))))))..... ( -41.40)
>DroYak_CAF1 125338 110 + 1
UUCCAACGCAGGGUGGUGU--GUAGCCAGAGUGGGGGGAGGGGAAGAGGGGUUUAGAUUUUCCACCCAGACAGGGGGGUAAACAUUUUCCCCAUCGACUCGAUGGAACAUUU
(((((.(......((((..--...))))((((.((....((((((((...(((((.....(((.(((.....))))))))))).)))))))).)).))))).)))))..... ( -37.80)
>consensus
UUCCAUCGCAGGGUGGUAU__CUAGUCAG_GAGGGGGGAGGG___GUGGGUUUUGGAUUUCCCACCCAGACGG_GGGACAAACAUUUUCCCCACCGACUCGAUGGAACAUUU
((((((((.(((((((................(((((((((................)))))).))).......((((........)))))))))..))))))))))..... (-29.23 = -29.16 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 2,120,025 – 2,120,135
Length 110
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 86.15
Mean single sequence MFE -33.02
Consensus MFE -27.23
Energy contribution -27.61
Covariance contribution 0.38
Combinations/Pair 1.09
Mean z-score -2.14
Structure conservation index 0.82
SVM decision value 1.26
SVM RNA-class probability 0.937570
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2120025 110 - 22407834
AAAUGUUCCAUCGAGUCGGUGGGGAAAAUGUUUGUCCC-CCGUCUGGGUGGGAAAUUCAAAACCCAACCACCCUCCCCCCUG-CUGACUAGAGAUACCACCCUUCGAUGGAA
.....((((((((((((((((((((.........))))-).....((((((................))))))........)-)))))).(((........))))))))))) ( -36.99)
>DroSec_CAF1 120372 105 - 1
AAAUGUUCCAUCGAGUCGGUGGGGAAAAUGUUUGUCCC-CCGUCUGGGUGGGAAAUCCAAAAACCAC---CCCUCCCCCCUC-GUGACUAG--AUACCACCCUGCGAUGGAA
.....((((((((....((((((((.........))).-..(((.(((.((((..............---...)))))))..-..)))...--...)))))...)))))))) ( -33.93)
>DroSim_CAF1 120158 105 - 1
AAAUGUUCCAUCGAGUCGGUGGGGAAAAUGUUUCUCCC-CCGUCUGGUUGGGAAAUCCAAAACCCAU---CCCUCCCCCCUC-CUGACUAG--AUACCACCCUGCGAUGGAA
.....((((((((....((((((((.........))).-..(((((((..(((..............---..........))-)..)))))--)).)))))...)))))))) ( -35.36)
>DroYak_CAF1 125338 110 - 1
AAAUGUUCCAUCGAGUCGAUGGGGAAAAUGUUUACCCCCCUGUCUGGGUGGAAAAUCUAAACCCCUCUUCCCCUCCCCCCACUCUGGCUAC--ACACCACCCUGCGUUGGAA
.....(((((.((((..((.((((.....((((.((.(((.....))).)).)))).....))))...))..))).........(((....--...)))......).))))) ( -25.80)
>consensus
AAAUGUUCCAUCGAGUCGGUGGGGAAAAUGUUUGUCCC_CCGUCUGGGUGGGAAAUCCAAAACCCAC___CCCUCCCCCCUC_CUGACUAG__AUACCACCCUGCGAUGGAA
.....((((((((((.(((.((((..........)))).))).))((((((.............................................))))))..)))))))) (-27.23 = -27.61 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:08 2006