Locus 3693

Sequence ID	3R_DroMel_CAF1
Location	10,012,649 – 10,012,743
Length	94
Max. P	0.998329

overview

Window 5

Location	10,012,649 – 10,012,743
Length	94
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	97.26
Mean single sequence MFE	-31.44
Consensus MFE	-29.26
Energy contribution	-29.46
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.21
Structure conservation index	0.93
SVM decision value	0.21
SVM RNA-class probability	0.635964
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10012649 94 + 27905053
CACGAUUUGCUCUGGCCUUGUGUUGGUAAGUGGAGGAGCCAAUCAGCCAUCGAUGGGCCAGGCUAAUUGAAAUCGUGUGUGAGAGUGUUCCAGG--
((((((((((.(((((((..((.((((...(((.....)))....)))).))..)))))))))......)))))))).................-- ( -30.80)
>DroSec_CAF1 90278 94 + 1
CACGAUUUGCUCUGGCCUUGUGUUGGUAAGUGGAGGAGCCAAUCAGCCAUCGAUGGGCCAGGCUAAUUGAAAUCGUGUGUGAGAGUGUUCCAGG--
((((((((((.(((((((..((.((((...(((.....)))....)))).))..)))))))))......)))))))).................-- ( -30.80)
>DroSim_CAF1 90495 94 + 1
CACGAUUUGCCCUGGCCUUGUGUUGGUAAGUGGAGGAGCCAAUCAGCCAUCGAUGGGCCAGGCUAAUUGAAAUCGUGUGUGAGAGUGUUCCAGG--
(((((((((((.((((((..((.((((...(((.....)))....)))).))..)))))))))......)))))))).................-- ( -30.80)
>DroEre_CAF1 94883 96 + 1
CACGAUUUGGUCUGGCCUUGUGUUGGUAAGUGGAGCAGCCAAUCAGCCAUCGACGGGCCAGGCUAAUUGAAAUCGUGUGUGAGAGUGUUCCAGGAA
((((((((((((((((((..((.((((...(((.....)))....)))).))..))))))))))).....)))))))................... ( -34.00)
>DroYak_CAF1 94631 94 + 1
CACGAUUUGCUCUGGCCUUGUGUUGGUAAGUGGAGCAGCCAAUCAGCCAUCGAUGGGCCAGGCUAAUUGAAAUCGUGUGUGAGAGUGUUCCAGG--
((((((((((.(((((((..((.((((...(((.....)))....)))).))..)))))))))......)))))))).................-- ( -30.80)
>consensus
CACGAUUUGCUCUGGCCUUGUGUUGGUAAGUGGAGGAGCCAAUCAGCCAUCGAUGGGCCAGGCUAAUUGAAAUCGUGUGUGAGAGUGUUCCAGG__
((((((((((.(((((((..((.((((...(((.....)))....)))).))..)))))))))......))))))))................... (-29.26 = -29.46 +   0.20)

alignment

secondary structure

dotplot

Window 6

Location	10,012,649 – 10,012,743
Length	94
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	97.26
Mean single sequence MFE	-25.34
Consensus MFE	-24.46
Energy contribution	-24.66
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.00
Structure conservation index	0.97
SVM decision value	3.07
SVM RNA-class probability	0.998329
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10012649 94 - 27905053
--CCUGGAACACUCUCACACACGAUUUCAAUUAGCCUGGCCCAUCGAUGGCUGAUUGGCUCCUCCACUUACCAACACAAGGCCAGAGCAAAUCGUG
--.................((((((((......((((((((....(.(((.(((.(((.....))).)))))).)....)))))).)))))))))) ( -26.00)
>DroSec_CAF1 90278 94 - 1
--CCUGGAACACUCUCACACACGAUUUCAAUUAGCCUGGCCCAUCGAUGGCUGAUUGGCUCCUCCACUUACCAACACAAGGCCAGAGCAAAUCGUG
--.................((((((((......((((((((....(.(((.(((.(((.....))).)))))).)....)))))).)))))))))) ( -26.00)
>DroSim_CAF1 90495 94 - 1
--CCUGGAACACUCUCACACACGAUUUCAAUUAGCCUGGCCCAUCGAUGGCUGAUUGGCUCCUCCACUUACCAACACAAGGCCAGGGCAAAUCGUG
--.................((((((((......((((((((....(.(((.(((.(((.....))).)))))).)....))))).))))))))))) ( -26.00)
>DroEre_CAF1 94883 96 - 1
UUCCUGGAACACUCUCACACACGAUUUCAAUUAGCCUGGCCCGUCGAUGGCUGAUUGGCUGCUCCACUUACCAACACAAGGCCAGACCAAAUCGUG
...................((((((((......(.((((((.((.(.(((.(((.(((.....))).)))))).)))..)))))).).)))))))) ( -22.70)
>DroYak_CAF1 94631 94 - 1
--CCUGGAACACUCUCACACACGAUUUCAAUUAGCCUGGCCCAUCGAUGGCUGAUUGGCUGCUCCACUUACCAACACAAGGCCAGAGCAAAUCGUG
--.................((((((((......((((((((....(.(((.(((.(((.....))).)))))).)....)))))).)))))))))) ( -26.00)
>consensus
__CCUGGAACACUCUCACACACGAUUUCAAUUAGCCUGGCCCAUCGAUGGCUGAUUGGCUCCUCCACUUACCAACACAAGGCCAGAGCAAAUCGUG
...................((((((((......((((((((....(.(((.(((.(((.....))).)))))).)....)))))).)))))))))) (-24.46 = -24.66 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:38 2006