Locus 566

Sequence ID 3R_DroMel_CAF1
Location 2,106,616 – 2,106,715
Length 99
Max. P 0.995885
window899 window900

overview

Window 9

Location 2,106,616 – 2,106,715
Length 99
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 70.20
Mean single sequence MFE -17.48
Consensus MFE -8.92
Energy contribution -8.92
Covariance contribution -0.00
Combinations/Pair 1.27
Mean z-score -1.94
Structure conservation index 0.51
SVM decision value 1.24
SVM RNA-class probability 0.935127
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2106616 99 + 27905053
CAUUUCAAUUUCCAUUUUUAUGUCCAUUUCCAUUUCCAUGU------------CCAUGGACGUGCCCAUGUCGAAAUGCAAUUUUA-CCAAACAACCAGCUAGCCAGCCAGC
((((((......(((...(((((((((...(((....))).------------..)))))))))...)))..))))))........-...........(((.(....).))) ( -14.60)
>DroSec_CAF1 249406 89 + 1
CAUUU------CCAUUUUCAUGUCCAUUUCCAUUUCCAUGU------------CCAUGGACGUGCCCAUGUCGAAAUGCAAUUUUA-CCAAACAGUCA----GUCAGGCAGC
(((((------((((...(((((((((...(((....))).------------..)))))))))...)))..))))))........-.......(((.----....)))... ( -18.30)
>DroSim_CAF1 252622 87 + 1
CAUUUCCAUUUCCAUUUUCAUGUCCAUUUCCAUUUCCAUGU------------CCAUGGACGUGCCCAUGUCGAAAUGCAAUUUUA-CCAAACAGCC------------AGC
......(((((((((...(((((((((...(((....))).------------..)))))))))...)))..))))))........-..........------------... ( -16.80)
>DroEre_CAF1 251475 83 + 1
UAUUUCGAUUUCGAUUUCCAUUUCUGUGUCCAUUUCCAUGU------------CCAUGGACGUGGCCAUGUCGAAAUACAAUUUUA-CC----------------AGCCAGC
.......((((((((..((((.((((((..(((....))).------------.)))))).))))....)))))))).........-..----------------....... ( -20.60)
>DroAna_CAF1 224325 97 + 1
CACUUCCACUUCAAUUUUCAAGUCCACAUCCGCGUCCCUGUCCACAUCCAGAUGCAUGGACGUGCCCAUAUCGAAAUGCAAUUUUCACC---------------UUGCGAUG
..........................(((((((((((.(((............))).))))))).............((((........---------------)))))))) ( -17.10)
>consensus
CAUUUCCAUUUCCAUUUUCAUGUCCAUUUCCAUUUCCAUGU____________CCAUGGACGUGCCCAUGUCGAAAUGCAAUUUUA_CCAAACA__C________AGCCAGC
........................(((((((((.((((((..............)))))).)))........)))))).................................. ( -8.92 =  -8.92 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 2,106,616 – 2,106,715
Length 99
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 70.20
Mean single sequence MFE -25.74
Consensus MFE -12.84
Energy contribution -12.44
Covariance contribution -0.40
Combinations/Pair 1.33
Mean z-score -2.41
Structure conservation index 0.50
SVM decision value 2.63
SVM RNA-class probability 0.995885
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2106616 99 - 27905053
GCUGGCUGGCUAGCUGGUUGUUUGG-UAAAAUUGCAUUUCGACAUGGGCACGUCCAUGG------------ACAUGGAAAUGGAAAUGGACAUAAAAAUGGAAAUUGAAAUG
(((((....)))))...........-........(((((((((((......((((((..------------.(((....)))...))))))......)))....)))))))) ( -24.80)
>DroSec_CAF1 249406 89 - 1
GCUGCCUGAC----UGACUGUUUGG-UAAAAUUGCAUUUCGACAUGGGCACGUCCAUGG------------ACAUGGAAAUGGAAAUGGACAUGAAAAUGG------AAAUG
..((((.(((----.....))).))-))......((((((..(((...((.((((((..------------.(((....)))...)))))).))...))))------))))) ( -25.60)
>DroSim_CAF1 252622 87 - 1
GCU------------GGCUGUUUGG-UAAAAUUGCAUUUCGACAUGGGCACGUCCAUGG------------ACAUGGAAAUGGAAAUGGACAUGAAAAUGGAAAUGGAAAUG
((.------------.(....)..)-)....((.((((((..(((...((.((((((..------------.(((....)))...)))))).))...))))))))).))... ( -22.70)
>DroEre_CAF1 251475 83 - 1
GCUGGCU----------------GG-UAAAAUUGUAUUUCGACAUGGCCACGUCCAUGG------------ACAUGGAAAUGGACACAGAAAUGGAAAUCGAAAUCGAAAUA
.......----------------..-.....(((.((((((((((..(((.(((....)------------)).)))..)))....((....))....)))))))))).... ( -20.60)
>DroAna_CAF1 224325 97 - 1
CAUCGCAA---------------GGUGAAAAUUGCAUUUCGAUAUGGGCACGUCCAUGCAUCUGGAUGUGGACAGGGACGCGGAUGUGGACUUGAAAAUUGAAGUGGAAGUG
((((....---------------))))....((.(((((((((.....((((((((......))))))))..((((..(((....)))..))))...))))))))).))... ( -35.00)
>consensus
GCUGGCU________G__UGUUUGG_UAAAAUUGCAUUUCGACAUGGGCACGUCCAUGG____________ACAUGGAAAUGGAAAUGGACAUGAAAAUGGAAAUGGAAAUG
..................................((((((..((((((....))))))..............((((...((....))...))))............)))))) (-12.84 = -12.44 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:13 2006