Locus 5450

Sequence ID	2L_DroMel_CAF1
Location	15,533,865 – 15,533,967
Length	102
Max. P	0.998407

overview

Window 2

Location	15,533,865 – 15,533,967
Length	102
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	94.12
Mean single sequence MFE	-39.78
Consensus MFE	-34.04
Energy contribution	-34.92
Covariance contribution	0.88
Combinations/Pair	1.06
Mean z-score	-1.90
Structure conservation index	0.86
SVM decision value	1.82
SVM RNA-class probability	0.978561
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15533865 102 + 22407834
UUAGUUGAGUUCCUCGAUGGACUGGUGGUGCUAGUGUCUGUUGGCCUGCGGCAGUCGAGUGCUGGCAGCGCUUGUUCGCCUGGCCAACAAGCCCAACACUAA
...((((((...))))))(((((((.....)))))(..((((((((...(((...(((((((.....)))))))...))).))))))))..)))........ ( -40.70)
>DroSec_CAF1 38932 102 + 1
UUAGUUGAGUUCCUCGAUGGACUGGUGGUGCUAGUGUCUGUUGGCCUGCGGCUGUCGAGUGCUGGCAGCGCUUGUUGGCCUGGCCAACAAGUCCAACACUAA
...((((((...))))))(((((((((.((((((((..((.(((((...))))).))..)))))))).))))(((((((...))))))))))))........ ( -42.40)
>DroSim_CAF1 39042 102 + 1
UUAGUUGAGUUCCUCGAUGGACUGGUGGUGCUAGUGUCUGUUGGCCUGCGGCUGUCGAGUGCUGGCAGCGCUUGUUGGCCUGGCCAACAAGUCCAACACUAA
...((((((...))))))(((((((((.((((((((..((.(((((...))))).))..)))))))).))))(((((((...))))))))))))........ ( -42.40)
>DroEre_CAF1 40497 102 + 1
UUAGUUGAGUUUCUCGAUGAACUGGUGGUGCUAGUGUCUGUUUGCCUGCGGCUGUCGAGUGCCGGCAGCGCUUGUUGGCCUGGCCAACAAGUCCAGCACUAA
...((((((...)))))).......(((((((..................(((((((.....)))))))((((((((((...))))))))))..))))))). ( -38.00)
>DroYak_CAF1 42873 102 + 1
UUAGUUGAGUUCCUCGAUGGACUGGUGGUGGUAGUGUCUGUUUGCCAGCGGCAGUCGAGUGCUAGCAGCGCUUGCUGGCCUGACCAACAAGUCUAACACUAA
...((((((...))))))(((((..(((((((((.......)))))...(((((.(((((((.....))))))))).)))..))))...)))))........ ( -35.40)
>consensus
UUAGUUGAGUUCCUCGAUGGACUGGUGGUGCUAGUGUCUGUUGGCCUGCGGCUGUCGAGUGCUGGCAGCGCUUGUUGGCCUGGCCAACAAGUCCAACACUAA
...((((........(((..(((((.....))))))))((((((((...(((((.(((((((.....))))))).))))).))))))))....))))..... (-34.04 = -34.92 +   0.88)

alignment

secondary structure

dotplot

Window 3

Location	15,533,865 – 15,533,967
Length	102
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	94.12
Mean single sequence MFE	-33.16
Consensus MFE	-29.86
Energy contribution	-29.70
Covariance contribution	-0.16
Combinations/Pair	1.15
Mean z-score	-2.14
Structure conservation index	0.90
SVM decision value	3.09
SVM RNA-class probability	0.998407
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15533865 102 - 22407834
UUAGUGUUGGGCUUGUUGGCCAGGCGAACAAGCGCUGCCAGCACUCGACUGCCGCAGGCCAACAGACACUAGCACCACCAGUCCAUCGAGGAACUCAACUAA
...((((((((..((((((((.((((..(.((.((.....)).)).)..))))...))))))))..).)))))))......(((.....))).......... ( -35.40)
>DroSec_CAF1 38932 102 - 1
UUAGUGUUGGACUUGUUGGCCAGGCCAACAAGCGCUGCCAGCACUCGACAGCCGCAGGCCAACAGACACUAGCACCACCAGUCCAUCGAGGAACUCAACUAA
...(((((((..(((((((((.(((...(.((.((.....)).)).)...)))...)))))))))...)))))))......(((.....))).......... ( -32.50)
>DroSim_CAF1 39042 102 - 1
UUAGUGUUGGACUUGUUGGCCAGGCCAACAAGCGCUGCCAGCACUCGACAGCCGCAGGCCAACAGACACUAGCACCACCAGUCCAUCGAGGAACUCAACUAA
...(((((((..(((((((((.(((...(.((.((.....)).)).)...)))...)))))))))...)))))))......(((.....))).......... ( -32.50)
>DroEre_CAF1 40497 102 - 1
UUAGUGCUGGACUUGUUGGCCAGGCCAACAAGCGCUGCCGGCACUCGACAGCCGCAGGCAAACAGACACUAGCACCACCAGUUCAUCGAGAAACUCAACUAA
...(((((((..((((((((...))))))))((.((((.(((........))))))))).........)))))))............(((...)))...... ( -34.90)
>DroYak_CAF1 42873 102 - 1
UUAGUGUUAGACUUGUUGGUCAGGCCAGCAAGCGCUGCUAGCACUCGACUGCCGCUGGCAAACAGACACUACCACCACCAGUCCAUCGAGGAACUCAACUAA
.(((((((.(.((((((((.....)))))))))..(((((((...........)))))))....)))))))..........(((.....))).......... ( -30.50)
>consensus
UUAGUGUUGGACUUGUUGGCCAGGCCAACAAGCGCUGCCAGCACUCGACAGCCGCAGGCCAACAGACACUAGCACCACCAGUCCAUCGAGGAACUCAACUAA
...(((((((..(((((((((.(((...(.((.((.....)).)).)...)))...)))))))))...)))))))......(((.....))).......... (-29.86 = -29.70 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:29 2006