Locus 7877

Sequence ID	3R_DroMel_CAF1
Location	21,095,217 – 21,095,377
Length	160
Max. P	0.874024

overview

Window 0

Location	21,095,217 – 21,095,337
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.00
Mean single sequence MFE	-28.54
Consensus MFE	-24.10
Energy contribution	-24.06
Covariance contribution	-0.04
Combinations/Pair	1.11
Mean z-score	-1.39
Structure conservation index	0.84
SVM decision value	0.12
SVM RNA-class probability	0.593489
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21095217 120 + 27905053
AAUUGAUUUUCAGUUCAGUGUGUGGAACUCUCCGGCCAUCGAUUUGCACUACUUCUUCUCCACUUCGAUCCAGGACCAUCUUCGCUGGAAACAUCAGCCUGAAUUGGUCCAGUUUUAUUA
.(((((........)))))..((((((((....((..(((((..((..............))..))))))).((((((..((((((((.....)))))..))).)))))))))))))).. ( -27.64)
>DroSec_CAF1 4453 120 + 1
AAUUGAUUUUCAGUUCAGUGUGUGGAACUCUCCGGCCAUCGAUCUGCACUACUUCUUCUCCACUUCGAUCCAGGACCAUCUUCGCUGGAAACAUCAGCCUGAAUUGGUCCAGUUUUAUUA
.(((((........)))))..((((((((....((..(((((..((..............))..))))))).((((((..((((((((.....)))))..))).)))))))))))))).. ( -27.64)
>DroSim_CAF1 4609 120 + 1
AAUUGAUUUUCAGUUCAGUGUGUGGAACUCUCCGGCCAUCGAUCUGCACUACUUCUUCUCCACUUCGAUCCAGGACCAUCUUCGCUGGAAACAUCAGCCUGAAUUGGUCCAGUUUUAUUA
.(((((........)))))..((((((((....((..(((((..((..............))..))))))).((((((..((((((((.....)))))..))).)))))))))))))).. ( -27.64)
>DroEre_CAF1 3210 120 + 1
AAUUGAUUUUCAGUUCAGUGUGUGGAACUCUCCGGCCAUCGAUUUGCACUAUUUCUUCACCACUUCGAUUCAGGACAAUCUUCGCUGGAAACAUCAGACUGAAUUGGUCCAGUUUUAUUA
(((((....((((((((((.((((......((((((.(((((..((..............))..)))))...(((.....)))))))))..)).)).))))))))))..)))))...... ( -27.14)
>DroYak_CAF1 4636 120 + 1
AAUUGAUUUUCAGUUCAGUGUGUGGAACUCUCCGGCCAUCGAUCUGCACUAUUUCUUCACCACUUCGAUCCAGGAUCAUCUUCGCUGGAAGCACCAGACUGAAUUGGUUCAGUUUUAUUA
((((((...((((((((((.((((((....))))((..((((..((..............))..))))(((((((......)).))))).))..)).)))))))))).))))))...... ( -32.64)
>consensus
AAUUGAUUUUCAGUUCAGUGUGUGGAACUCUCCGGCCAUCGAUCUGCACUACUUCUUCUCCACUUCGAUCCAGGACCAUCUUCGCUGGAAACAUCAGCCUGAAUUGGUCCAGUUUUAUUA
.(((((........)))))..((((((((....((..(((((..((..............))..))))))).((((((..((((((((.....)))))..))).)))))))))))))).. (-24.10 = -24.06 +  -0.04)

alignment

secondary structure

dotplot

Window 1

Location	21,095,257 – 21,095,377
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.33
Mean single sequence MFE	-31.08
Consensus MFE	-25.64
Energy contribution	-25.72
Covariance contribution	0.08
Combinations/Pair	1.18
Mean z-score	-1.67
Structure conservation index	0.82
SVM decision value	0.88
SVM RNA-class probability	0.874024
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21095257 120 + 27905053
GAUUUGCACUACUUCUUCUCCACUUCGAUCCAGGACCAUCUUCGCUGGAAACAUCAGCCUGAAUUGGUCCAGUUUUAUUACUACAGGCUGGUGGAAUCUCUGAAGAAACUACAGUAUUCG
((..(((.....((((((.....(((..(((((((......)).)))))..((((((((((...((((...........))))))))))))))))).....))))))......))).)). ( -31.80)
>DroSec_CAF1 4493 120 + 1
GAUCUGCACUACUUCUUCUCCACUUCGAUCCAGGACCAUCUUCGCUGGAAACAUCAGCCUGAAUUGGUCCAGUUUUAUUACUACCGGCUGGUGGAAUCCCUGAAGAAGCUAAAGUAUUCG
((..(((..(((((((((((((((.....((.((((((..((((((((.....)))))..))).))))))(((......)))...))..))))))......))))))).))..))).)). ( -33.20)
>DroSim_CAF1 4649 120 + 1
GAUCUGCACUACUUCUUCUCCACUUCGAUCCAGGACCAUCUUCGCUGGAAACAUCAGCCUGAAUUGGUCCAGUUUUAUUACUACCGGCUGGUAGAAUCCCUGAAGAAGCUACAGUAUUCG
((.(((.....(((((((..............((((((..((((((((.....)))))..))).))))))..........(((((....))))).......)))))))...)))...)). ( -32.20)
>DroEre_CAF1 3250 120 + 1
GAUUUGCACUAUUUCUUCACCACUUCGAUUCAGGACAAUCUUCGCUGGAAACAUCAGACUGAAUUGGUCCAGUUUUAUUACUACCAGCUGGUGGAAGCCUUGAAGAAACUACAGUAUUCU
((..(((....((((((((...((((..(((((((......)).)))))..((((((......(((((..(((......))))))))))))))))))...)))))))).....))).)). ( -26.80)
>DroYak_CAF1 4676 120 + 1
GAUCUGCACUAUUUCUUCACCACUUCGAUCCAGGAUCAUCUUCGCUGGAAGCACCAGACUGAAUUGGUUCAGUUUUAUUACUACCAGCUGGUGGAAUCCUUGAAGAAGCUAAAGUAUUCG
((..(((..(((((((((((((((..((((...))))......(((((.((....((((((((....)))))))).....)).))))).)))))......)))))))).))..))).)). ( -31.40)
>consensus
GAUCUGCACUACUUCUUCUCCACUUCGAUCCAGGACCAUCUUCGCUGGAAACAUCAGCCUGAAUUGGUCCAGUUUUAUUACUACCGGCUGGUGGAAUCCCUGAAGAAGCUACAGUAUUCG
((..(((..(((((((((..............((((((..((((((((.....)))))..))).))))))..........(((((....))))).......))))))).))..))).)). (-25.64 = -25.72 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:59 2006