Locus 7854

Sequence ID	3L_DroMel_CAF1
Location	20,998,068 – 20,998,179
Length	111
Max. P	0.976813

overview

Window 6

Location	20,998,068 – 20,998,179
Length	111
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	92.21
Mean single sequence MFE	-23.63
Consensus MFE	-21.34
Energy contribution	-21.78
Covariance contribution	0.44
Combinations/Pair	1.06
Mean z-score	-1.40
Structure conservation index	0.90
SVM decision value	0.91
SVM RNA-class probability	0.879555
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20998068 111 + 23771897
CAAAGGGGAAAUUCCAAUAAUAACAACAAUAAUAAAAAACACAAUUGCAUGACGACGGUGAAGGCGAAAGUAAAAGCCAUUGCCCCCUUUCACCCCCCGAAUCGCAUGAAG
....((((..................((((.............)))).........(((((((((((..((....))..)))))....))))))))))............. ( -20.12)
>DroSec_CAF1 15632 111 + 1
CAAAGGGGAAAUUCCAAUAGUAAUAACAAUAAUAAAAAACACAAUUGCAUGACGACGGUGAAGGCGAAAGUAAGAGCCGUUGCCCCCUUUCACCCCCCGAAUCGCAUGAAG
.(((((((...........(((((...................)))))....(((((((....((....))....))))))).)))))))..................... ( -25.81)
>DroSim_CAF1 23085 110 + 1
CAAAGGGGAAAUUCCAAUAGUAAUAACAAUAAUAAAAAACACAAUUGCAUGACGACGGUGAAGGCGAAAGUAAGAGCCGUUGCCCCCUUCCACC-CCCGAAUCGCAUGAAG
..((((((...........(((((...................)))))....(((((((....((....))....))))))).)))))).....-................ ( -24.91)
>DroEre_CAF1 24413 105 + 1
CAAAGGGGAAAUUCCGAUAAUA------AUAAUAAAAAAUACAAUUGCAUGUCGACGGCGAAGGCGAAAGUAAGAGCCGCUGCCCCCUUUCACCCCCCGAAUCGCAUGAAG
.(((((((......(((((.((------((.............))))..))))).((((....((....))....))))....)))))))..................... ( -23.52)
>DroYak_CAF1 21844 105 + 1
CAAAGGGGAAAUUCCAAUAAUA------AUAAUAAAAAACACAAUUGCAUGUCGACGGUGAAGGCGAAAGUAAGAGCCGUUGCCCCCUUUCACCCUCCGAAUCGCAUGAAG
.(((((((..............------............(((......)))(((((((....((....))....))))))).)))))))..................... ( -23.80)
>consensus
CAAAGGGGAAAUUCCAAUAAUAA_AACAAUAAUAAAAAACACAAUUGCAUGACGACGGUGAAGGCGAAAGUAAGAGCCGUUGCCCCCUUUCACCCCCCGAAUCGCAUGAAG
.(((((((.................................((......)).(((((((....((....))....))))))).)))))))..................... (-21.34 = -21.78 +   0.44)

alignment

secondary structure

dotplot

Window 7

Location	20,998,068 – 20,998,179
Length	111
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	92.21
Mean single sequence MFE	-29.81
Consensus MFE	-28.98
Energy contribution	-28.70
Covariance contribution	-0.28
Combinations/Pair	1.12
Mean z-score	-1.48
Structure conservation index	0.97
SVM decision value	1.78
SVM RNA-class probability	0.976813
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20998068 111 - 23771897
CUUCAUGCGAUUCGGGGGGUGAAAGGGGGCAAUGGCUUUUACUUUCGCCUUCACCGUCGUCAUGCAAUUGUGUUUUUUAUUAUUGUUGUUAUUAUUGGAAUUUCCCCUUUG
...((((((((...(((((((((((.((((....))))...)))))))))))...)))).))))((((.(((........))).))))........((.....))...... ( -29.10)
>DroSec_CAF1 15632 111 - 1
CUUCAUGCGAUUCGGGGGGUGAAAGGGGGCAACGGCUCUUACUUUCGCCUUCACCGUCGUCAUGCAAUUGUGUUUUUUAUUAUUGUUAUUACUAUUGGAAUUUCCCCUUUG
...((((((((...((((((((((((((((....)))))..)))))))))))...)))).))))((((.(((.................))).)))).............. ( -30.93)
>DroSim_CAF1 23085 110 - 1
CUUCAUGCGAUUCGGG-GGUGGAAGGGGGCAACGGCUCUUACUUUCGCCUUCACCGUCGUCAUGCAAUUGUGUUUUUUAUUAUUGUUAUUACUAUUGGAAUUUCCCCUUUG
...((((((((..(((-(((((((((((((....)))))..)))))))))))...)))).))))((((.(((.................))).)))).............. ( -29.03)
>DroEre_CAF1 24413 105 - 1
CUUCAUGCGAUUCGGGGGGUGAAAGGGGGCAGCGGCUCUUACUUUCGCCUUCGCCGUCGACAUGCAAUUGUAUUUUUUAUUAU------UAUUAUCGGAAUUUCCCCUUUG
...((((((((...((((((((((((((((....)))))..)))))))))))...)))).))))...................------.......((.....))...... ( -29.00)
>DroYak_CAF1 21844 105 - 1
CUUCAUGCGAUUCGGAGGGUGAAAGGGGGCAACGGCUCUUACUUUCGCCUUCACCGUCGACAUGCAAUUGUGUUUUUUAUUAU------UAUUAUUGGAAUUUCCCCUUUG
...((((((((...((((((((((((((((....)))))..)))))))))))...)))).))))((((.(((...........------))).)))).............. ( -31.00)
>consensus
CUUCAUGCGAUUCGGGGGGUGAAAGGGGGCAACGGCUCUUACUUUCGCCUUCACCGUCGUCAUGCAAUUGUGUUUUUUAUUAUUGUU_UUAUUAUUGGAAUUUCCCCUUUG
...((((((((...((((((((((((((((....)))))..)))))))))))...)))).))))................................((.....))...... (-28.98 = -28.70 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:43 2006