Locus 4696

Sequence ID	X_DroMel_CAF1
Location	12,231,976 – 12,232,125
Length	149
Max. P	0.886991

overview

Window 5

Location	12,231,976 – 12,232,094
Length	118
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	95.03
Mean single sequence MFE	-26.96
Consensus MFE	-23.44
Energy contribution	-23.68
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-1.32
Structure conservation index	0.87
SVM decision value	0.33
SVM RNA-class probability	0.689843
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12231976 118 + 22224390
UAUUUAGCUCCCAAGUGGAGCAUCUUCAGUGCACUUGAUUGCAUGCCACCAAACACAAAGGAUAUCGUAAUUGAGCAGCCAUGAAGACACAGACCAAAUCGAACUGAAUCCAAAACCG
......(((((.....))))).((((((..((.((..((((((((((............)).))).)))))..))..))..))))))..(((..(.....)..)))............ ( -26.20)
>DroSec_CAF1 54494 116 + 1
UAUUUAGCUCCCAAGUGGAGCAUCUUCAGUGCUCUUGAUUGCAUGCCACCGAACACAAAGGAUAUCGUAAUUGAGCAGCCAUGAAGA--CAGACCAAAUCGAACUGAAUCCAAAACCG
......(((((.....))))).((((((..(((((..((((((((((............)).))).)))))..)).)))..))))))--(((..(.....)..)))............ ( -29.00)
>DroSim_CAF1 55156 116 + 1
UAUUUAGCUCCCAAGUGGAGCAUCUUCAGUGCACUUGAUUGCAUGCCACCGAACACAAAGGAUAUCGUAAUUGAGCAGCCAUGAAGA--CAGACCAAAUCGAACUGAAUCCAAAACCG
......(((((.....))))).((((((..((.((..((((((((((............)).))).)))))..))..))..))))))--(((..(.....)..)))............ ( -26.20)
>DroEre_CAF1 52167 116 + 1
UAUUUAGCUCCCAAGUGGAGCAUCUCCAUUGCACUUGAUUGCAUGCCACUAAACACAAAGGAUAUCGUAAUUGAGCAGCCAUGAAGA--CAGUCCAAAUCGAAGUGAAUCCAAAACCG
(((((.(((((.....))))).(((.(((.((.((..((((((((((............)).))).)))))..))..)).))).)))--............)))))............ ( -23.30)
>DroYak_CAF1 39594 116 + 1
UAUUUAGCUCCCAAGUGGAGCAUAUUCAUUGCACUUGAUUGCAUGCCACCGAACACAAAGGACAUCGUAAUUGAGCAGCCAUGAAGA--CAGUCCAAAUCGAGCUGCAUCCAAAACCG
....((((((.....((((.....(((((.((.((..((((((((((............)).))).)))))..))..)).)))))..--...))))....))))))............ ( -30.10)
>consensus
UAUUUAGCUCCCAAGUGGAGCAUCUUCAGUGCACUUGAUUGCAUGCCACCGAACACAAAGGAUAUCGUAAUUGAGCAGCCAUGAAGA__CAGACCAAAUCGAACUGAAUCCAAAACCG
......(((((.....))))).((((((..((.((..((((((((((............)).))).)))))..))..))..))))))............................... (-23.44 = -23.68 +   0.24)

alignment

secondary structure

dotplot

Window 6

Location	12,232,016 – 12,232,125
Length	109
Sequences	5
Columns	109
Reading direction	reverse
Mean pairwise identity	95.55
Mean single sequence MFE	-34.44
Consensus MFE	-29.50
Energy contribution	-29.98
Covariance contribution	0.48
Combinations/Pair	1.06
Mean z-score	-1.61
Structure conservation index	0.86
SVM decision value	0.94
SVM RNA-class probability	0.886991
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12232016 109 - 22224390
CGCCUUUAAGAGCUUGAUGAGCCGUGACAGGCGGUUUUGGAUUCAGUUCGAUUUGGUCUGUGUCUUCAUGGCUGCUCAAUUACGAUAUCCUUUGUGUUUGGUGGCAUGC
.(((.((((((((......(((((((((((((.(..((((((...))))))..).))))).....))))))))))))...(((((......))))).)))).))).... ( -33.60)
>DroSec_CAF1 54534 107 - 1
CGCCUUUAAGAGCUUGAUGAGCCGUGACAGGCGGUUUUGGAUUCAGUUCGAUUUGGUCUG--UCUUCAUGGCUGCUCAAUUACGAUAUCCUUUGUGUUCGGUGGCAUGC
.(((.....((((((((..((((((((.((((((..(..((((......))))..).)))--)))))))))))..))))..((((......))))))))...))).... ( -35.60)
>DroSim_CAF1 55196 107 - 1
CGCCUUUAAGAGCUUGAUGAGCCGUGACAGGCGGUUUUGGAUUCAGUUCGAUUUGGUCUG--UCUUCAUGGCUGCUCAAUUACGAUAUCCUUUGUGUUCGGUGGCAUGC
.(((.....((((((((..((((((((.((((((..(..((((......))))..).)))--)))))))))))..))))..((((......))))))))...))).... ( -35.60)
>DroEre_CAF1 52207 107 - 1
CGCCUUUAAGAGCUUGAUGAGCUGUGACAGGCGGUUUUGGAUUCACUUCGAUUUGGACUG--UCUUCAUGGCUGCUCAAUUACGAUAUCCUUUGUGUUUAGUGGCAUGC
.(((.((((((((......((((((((.(((((((.(..((((......))))..)))))--)))))))))))))))...(((((......))))).)))).))).... ( -34.00)
>DroYak_CAF1 39634 107 - 1
CGCCUUUAAAAGCUUGAUGAGCCGUGACAGGCGGUUUUGGAUGCAGCUCGAUUUGGACUG--UCUUCAUGGCUGCUCAAUUACGAUGUCCUUUGUGUUCGGUGGCAUGC
((((.........((((..((((((((.(((((((.(..(((........)))..)))))--)))))))))))..)))).(((((......)))))...))))...... ( -33.40)
>consensus
CGCCUUUAAGAGCUUGAUGAGCCGUGACAGGCGGUUUUGGAUUCAGUUCGAUUUGGUCUG__UCUUCAUGGCUGCUCAAUUACGAUAUCCUUUGUGUUCGGUGGCAUGC
.(((.....((((((((..(((((((((((((.(..(((((.....)))))..).))))).....))))))))..))))..((((......))))))))...))).... (-29.50 = -29.98 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:14 2006