Locus 7288

Sequence ID 3R_DroMel_CAF1
Location 19,236,433 – 19,236,576
Length 143
Max. P 0.831719
window11787 window11788

overview

Window 7

Location 19,236,433 – 19,236,536
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.32
Mean single sequence MFE -38.48
Consensus MFE -25.36
Energy contribution -25.20
Covariance contribution -0.16
Combinations/Pair 1.35
Mean z-score -1.64
Structure conservation index 0.66
SVM decision value 0.72
SVM RNA-class probability 0.831719
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19236433 103 - 27905053
ACAUCGGCGGUGGUGGCUUCCGCCGCC---AGCAACCAUGUCCGCUCCGGCGGUGGUGUUGUCAAGCCCAAGAAGGCGUACAAACGGAGCAGCAGUAAUAACAAUA--------------
.....((((((((......))))))))---........(((..((((((((....)).((((...(((......)))..)))).)))))).)))............-------------- ( -36.40)
>DroVir_CAF1 52669 105 - 1
ACA---GCUGUGGGCACAUCUGUGGCA---GGCAGU------CGCC---UUGGAGGCGUUAGCAAGCCCAAGAAGCAAUACAAGCGUAGCAACAGCAGCGCCAACAGCUCAAACAGCAAC
...---(((((((((...(((..(((.---.((...------((((---.....))))...))..)))..)))..........((((.((....)).)))).....))))..)))))... ( -37.00)
>DroSec_CAF1 32150 103 - 1
ACAUCGGCGGUGGUGGCUUCCGCCGCC---AGCAACCAUGUCCGCUCCGGCGGAGGUGUUGUCAAGGCCAAGAAGGCGUACAAACGGAGCAGUAGUAAUAACAAUA--------------
.....((((((((......))))))))---.((...(((.(((((....))))).)))((((..(.(((.....))).))))).....))................-------------- ( -38.30)
>DroSim_CAF1 32450 103 - 1
ACAUCGGCGGUGGUGGCUUCCGCCGCC---AGCAACCAUGUCCGCUCCGGCGGAGGUGUUGUCAAGCCCAAGAAGGCGUACAAACGGAGCAGUAGUAAUAACAAUA--------------
.....((((((((......))))))))---.((...(((.(((((....))))).)))((((...(((......)))..)))).....))................-------------- ( -38.90)
>DroEre_CAF1 33106 106 - 1
ACAUCGGCGGUGGUGACUUCCGCCGCCAGCAGCGGUCAUGUCCGCUCCGGCGGUGGCGUUGUCAAGCCCAAGAAGGCGUACAAACGGAGCAGCAGUAAUAACAAUA--------------
.....((((((((......))))))))....((((......))((((((...(((.(((..((........))..))))))...)))))).)).............-------------- ( -42.10)
>DroYak_CAF1 33669 106 - 1
ACAUCGGCGGUGGUGACUUCCGGCGCCGCCAGCAGCCAUGUCCGCUCCGGCGGCGGUGUUGUCAAGCCCAAGAAGGCGUACAAACGGAGCAGCAGCAAUAACAAUA--------------
.....(((((((.((.....)).)))))))....((..(((..(((((((((((...))))))..(((......)))........))))).)))))..........-------------- ( -38.20)
>consensus
ACAUCGGCGGUGGUGACUUCCGCCGCC___AGCAACCAUGUCCGCUCCGGCGGAGGUGUUGUCAAGCCCAAGAAGGCGUACAAACGGAGCAGCAGUAAUAACAAUA______________
.....((((((((......))))))))....((.(((....((((....)))).)))(((.....(((......))).....)))...)).............................. (-25.36 = -25.20 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 19,236,459 – 19,236,576
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 84.06
Mean single sequence MFE -50.00
Consensus MFE -32.05
Energy contribution -33.80
Covariance contribution 1.75
Combinations/Pair 1.11
Mean z-score -2.32
Structure conservation index 0.64
SVM decision value -0.08
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19236459 117 - 27905053
GCAACCUUUGAAACCGGAAGUCAGUACCUCCACAUCACCCACAUCGGCGGUGGUGGCUUCCGCCGCC---AGCAACCAUGUCCGCUCCGGCGGUGGUGUUGUCAAGCCCAAGAAGGCGUA
((.....((((.(((((((((((.((((.((..............)).)))).))))))))((((((---(((..........)))..)))))))))....))))(((......))))). ( -44.54)
>DroSec_CAF1 32176 117 - 1
GCAACCUUUGAAGCCGGAGGUCAGUACCUCCACAUCACCCACAUCGGCGGUGGUGGCUUCCGCCGCC---AGCAACCAUGUCCGCUCCGGCGGAGGUGUUGUCAAGGCCAAGAAGGCGUA
....(((((...(((((((((....))))))(((.((((......((((((((......))))))))---..........(((((....))))))))).)))...)))...))))).... ( -53.70)
>DroSim_CAF1 32476 117 - 1
GCAACCUUUGAAGCCGGAGGUCAGCACCUCCACAUCACCCACAUCGGCGGUGGUGGCUUCCGCCGCC---AGCAACCAUGUCCGCUCCGGCGGAGGUGUUGUCAAGCCCAAGAAGGCGUA
............(((((((((....))))))..............(((((((((((...))))))))---.(((((.((.(((((....))))).)))))))...)))......)))... ( -50.20)
>DroEre_CAF1 33132 120 - 1
GCAACCCUUGAAACCGGAGGUCAGUACCUCCACAUCGCCCACAUCGGCGGUGGUGACUUCCGCCGCCAGCAGCGGUCAUGUCCGCUCCGGCGGUGGCGUUGUCAAGCCCAAGAAGGCGUA
((....((((.....((((((....)))))).(((((((......))))))).((((..((((((((.(.(((((......)))))).))))))))....))))....))))...))... ( -56.10)
>DroYak_CAF1 33695 120 - 1
GCAACCGUUGAAACCGGAGGUCAGUACCUCCACAUCGCCCACAUCGGCGGUGGUGACUUCCGGCGCCGCCAGCAGCCAUGUCCGCUCCGGCGGCGGUGUUGUCAAGCCCAAGAAGGCGUA
((((((.......((((((((((.((((.((..............)).)))).))))))))))(((((((.(.(((.......)))).)))))))).)))))...(((......)))... ( -53.04)
>DroPer_CAF1 45837 114 - 1
GCAGCCACUAAAGCCGGAAGUGAGCACAUCAACACCGCCCACG--GGCGGAGCAGGCU-CGUCCGCC---AACCAUCCUGGCAGAUCUGGCAGUGGCAUCUCAAAGCCCAAGAAGCAGUA
((.((((((...((((((...((((.........(((((....--))))).....)))-).((.(((---(.......)))).)))))))))))))).(((.........))).)).... ( -42.44)
>consensus
GCAACCUUUGAAACCGGAGGUCAGUACCUCCACAUCACCCACAUCGGCGGUGGUGGCUUCCGCCGCC___AGCAACCAUGUCCGCUCCGGCGGUGGUGUUGUCAAGCCCAAGAAGGCGUA
...............((((((....))))))(((.((((......((((((((......))))))))..............((((....)))).)))).)))...(((......)))... (-32.05 = -33.80 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:09 2006