Locus 5749

Sequence ID	3L_DroMel_CAF1
Location	15,627,207 – 15,627,367
Length	160
Max. P	0.967031

overview

Window 6

Location	15,627,207 – 15,627,327
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.17
Mean single sequence MFE	-27.80
Consensus MFE	-24.46
Energy contribution	-25.10
Covariance contribution	0.64
Combinations/Pair	1.19
Mean z-score	-1.69
Structure conservation index	0.88
SVM decision value	1.51
SVM RNA-class probability	0.960105
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15627207 120 + 23771897
UUGUCAGUGUUUUUGUAGCAAGUGAAGGCAACUAUUUUGGGGAUUUAUUCAAAUGCAAUGAUUUUCUGCUAAAGUGUCAGGAAACUGAAAUCAUAAUGGGAAAGUUCAAUAGAAUGACAA
.(((((...((.(((..(((..((((..(..(......)..).....))))..)))...((((((((.........((((....))))..........))))))))))).))..))))). ( -25.11)
>DroSec_CAF1 49448 120 + 1
UUAUCAGUGUUUUUAUUGCAAGUGAAGGCAACUAUUUUGGGGAUUUAUUCAAAUGCAAUGAUUUGCUGCUUAAAUGUCAGGAAACUGAAACCAUAAUUGGAAAGUUCAAUAGAAUGACAA
....(((((...((((((((..((((..(..(......)..).....))))..))))))))..)))))........((((....))))..(((....)))...((((....))))..... ( -26.90)
>DroSim_CAF1 50451 120 + 1
UUUUCAGUGUUUUUAUAGCAAGUGAAGGCAACUAUUUUGGGGAUUUAUUCAAAUGCAGUGAUUUGCUGCUUAAAUGUCAGGAAACUGAAACCAUAAUGGGAAAGUUCAAUAGAAUGACAA
.((((..(((((((((.....))))))))).(((((.(((..............(((((.....))))).......((((....))))..))).)))))))))((((....))))..... ( -29.90)
>DroEre_CAF1 50691 120 + 1
UUGUCAGUGUUUCUACAGGAAGUGAAGGCAGCUAUUUUGGGGAUUUAUUGAAAUGCAAUGAUUUGUUGCUAAAGUGUCAGGAAACUGAAACCAUAAUGGGCAAGUUCAAUGGAAUGGCAA
.((((..(..(((.....)))..)..))))((((((..(..((.((((((.....))))))....(((((...(((((((....))))...)))....)))))..))..)..)))))).. ( -30.40)
>DroYak_CAF1 54003 120 + 1
UUGUCAGUGUUUUUAUAGGAAGUGAGUGCAACUAUUUUGGAGAUUUAUUCAAAUGCAAUGACUUGUUGCUAAAGUGUCAGGAAACUGAAACCAUAAUGGGGAAGUUCAAUAAAAUGACAA
.(((((.(((.(((((.....))))).))).(((((.(((..............(((((.....))))).......((((....))))..))).)))))...............))))). ( -26.70)
>consensus
UUGUCAGUGUUUUUAUAGCAAGUGAAGGCAACUAUUUUGGGGAUUUAUUCAAAUGCAAUGAUUUGCUGCUAAAGUGUCAGGAAACUGAAACCAUAAUGGGAAAGUUCAAUAGAAUGACAA
.(((((.(((((((((.....))))))))).(((((.(((..............(((((.....))))).......((((....))))..))).)))))...............))))). (-24.46 = -25.10 +   0.64)

alignment

secondary structure

dotplot

Window 7

Location	15,627,247 – 15,627,367
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.75
Mean single sequence MFE	-28.80
Consensus MFE	-22.64
Energy contribution	-22.64
Covariance contribution	0.00
Combinations/Pair	1.20
Mean z-score	-2.33
Structure conservation index	0.79
SVM decision value	1.60
SVM RNA-class probability	0.967031
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15627247 120 + 23771897
GGAUUUAUUCAAAUGCAAUGAUUUUCUGCUAAAGUGUCAGGAAACUGAAAUCAUAAUGGGAAAGUUCAAUAGAAUGACAAAUGAGUUGAAUCGAAACUGCAGCCAGGAAAUUGGGUCCAA
((((((((((...((((....((((((..((..((.((((....)))).))..))..))))))(((((((...((.....))..)))))))......)))).....)))..))))))).. ( -26.50)
>DroSec_CAF1 49488 120 + 1
GGAUUUAUUCAAAUGCAAUGAUUUGCUGCUUAAAUGUCAGGAAACUGAAACCAUAAUUGGAAAGUUCAAUAGAAUGACAAAUGAGCUAAAUCGAAACUGCAGCCAGGAAAUUGGAUCCAA
((((((((((...((((.(((((((..(((((..((((((....)((((.(((....)))....))))......)))))..))))))))))))....)))).....)))..))))))).. ( -31.10)
>DroSim_CAF1 50491 120 + 1
GGAUUUAUUCAAAUGCAGUGAUUUGCUGCUUAAAUGUCAGGAAACUGAAACCAUAAUGGGAAAGUUCAAUAGAAUGACAAAUGAGCUAAAUCAUAACUGCAGCCAGGAAAUUGGGUUCAA
((((((((((...((((((((((((..(((((..((((((....)((((.((.....)).....))))......)))))..)))))))))))...)))))).....)))..))))))).. ( -30.60)
>DroEre_CAF1 50731 120 + 1
GGAUUUAUUGAAAUGCAAUGAUUUGUUGCUAAAGUGUCAGGAAACUGAAACCAUAAUGGGCAAGUUCAAUGGAAUGGCAAAUGAGCUGAAUCAAAACUGCAGUCAGGAAAUUGGCUCCAA
(((..........((((.((((((..((((...(((((((....))))...)))....))))((((((.((......))..))))))))))))....))))(((((....)))))))).. ( -29.20)
>DroYak_CAF1 54043 120 + 1
AGAUUUAUUCAAAUGCAAUGACUUGUUGCUAAAGUGUCAGGAAACUGAAACCAUAAUGGGGAAGUUCAAUAAAAUGACAAAUGAGCUGAAUCGAAACUGCAGUCGGGAAAUUGGCCCCAA
..............(((((.....)))))....((.((((....)))).)).....(((((.((((((.............))))))...((((........))))........))))). ( -26.62)
>consensus
GGAUUUAUUCAAAUGCAAUGAUUUGCUGCUAAAGUGUCAGGAAACUGAAACCAUAAUGGGAAAGUUCAAUAGAAUGACAAAUGAGCUGAAUCGAAACUGCAGCCAGGAAAUUGGCUCCAA
((((((((((...((((.((((((...(((....((((((....)((((.((......))....))))......)))))....))).))))))....)))).....)))..))))))).. (-22.64 = -22.64 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:41 2006