Locus 2980

Sequence ID 2R_DroMel_CAF1
Location 10,279,939 – 10,280,031
Length 92
Max. P 0.965500
window4924 window4925

overview

Window 4

Location 10,279,939 – 10,280,031
Length 92
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 93.67
Mean single sequence MFE -31.75
Consensus MFE -29.44
Energy contribution -29.00
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -2.13
Structure conservation index 0.93
SVM decision value 1.58
SVM RNA-class probability 0.965500
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10279939 92 + 20766785
-UGUG--UGUGUGCUUAAGGGGAGGGGUUUAGGUGCAUGUGUGUGCACCGGUGUGCGUGUCAUAUGUACACAUGCUUGUCCUAGUUUCGCUGGAU
-...(--((...(((..((((.(((.((...(((((((....))))))).(((((((((...))))))))))).))).)))))))..)))..... ( -32.80)
>DroSec_CAF1 21836 94 + 1
-CGUGUGUGUGUGCUUAAGGGGAGGGGUUUGCGUGCAUGUGUGUGCACCGGUGUGCGUGUCAUAUGUACACAUGCUUGUCCUAGUUUCGCUGGAU
-.....(((...(((....((((.((((.((.((((((((((..((((....))))..).))))))))).)).)))).)))))))..)))..... ( -33.30)
>DroEre_CAF1 25755 95 + 1
GUGUGUGUGUGUGCUUAAGGGGAGGGGUUUACGUGCAUGUGAGUGCACCGGUGUGCGUGUUAUAUGUACACAUGCUUGUCCUAGUUUCGCUGGAU
......(((...(((..((((.(((.((....((((((....))))))..(((((((((...))))))))))).))).)))))))..)))..... ( -28.80)
>DroYak_CAF1 23915 95 + 1
GUAUGUGUGCGUGCUUAAAGGGAGGGGUUUACGUGCAUGUGAGUGCACCGGUGUGCGUGUUAUAUGUACACAUGCUUGUCCUAGUUUCGCUGGAU
((((((((((((((((.....))).....((((..((((((....)))..)))..))))...)))))))))))))..((((.((.....)))))) ( -32.10)
>consensus
_UGUGUGUGUGUGCUUAAGGGGAGGGGUUUACGUGCAUGUGAGUGCACCGGUGUGCGUGUCAUAUGUACACAUGCUUGUCCUAGUUUCGCUGGAU
........(((.(((....((((.((((....(((((((((..(((((....)))))...)))))))))....)))).)))))))..)))..... (-29.44 = -29.00 +  -0.44)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 5

Location 10,279,939 – 10,280,031
Length 92
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 93.67
Mean single sequence MFE -17.11
Consensus MFE -15.00
Energy contribution -14.75
Covariance contribution -0.25
Combinations/Pair 1.06
Mean z-score -1.98
Structure conservation index 0.88
SVM decision value 0.98
SVM RNA-class probability 0.893327
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10279939 92 - 20766785
AUCCAGCGAAACUAGGACAAGCAUGUGUACAUAUGACACGCACACCGGUGCACACACAUGCACCUAAACCCCUCCCCUUAAGCACACA--CACA-
.(((((.....)).)))...((((((((.(....)....((((....))))..))))))))...........................--....- ( -18.20)
>DroSec_CAF1 21836 94 - 1
AUCCAGCGAAACUAGGACAAGCAUGUGUACAUAUGACACGCACACCGGUGCACACACAUGCACGCAAACCCCUCCCCUUAAGCACACACACACG-
.(((((.....)).)))...((((((((.(....)....((((....))))..)))))))).................................- ( -18.20)
>DroEre_CAF1 25755 95 - 1
AUCCAGCGAAACUAGGACAAGCAUGUGUACAUAUAACACGCACACCGGUGCACUCACAUGCACGUAAACCCCUCCCCUUAAGCACACACACACAC
.....((......(((....(((((((............((((....))))...)))))))..(....)......)))...))............ ( -15.26)
>DroYak_CAF1 23915 95 - 1
AUCCAGCGAAACUAGGACAAGCAUGUGUACAUAUAACACGCACACCGGUGCACUCACAUGCACGUAAACCCCUCCCUUUAAGCACGCACACAUAC
.....(((.....(((....(((((((............((((....))))...)))))))..(....).....))).......)))........ ( -16.76)
>consensus
AUCCAGCGAAACUAGGACAAGCAUGUGUACAUAUAACACGCACACCGGUGCACACACAUGCACGUAAACCCCUCCCCUUAAGCACACACACACA_
.(((((.....)).)))...(((((((((....))....((((....))))...))))))).................................. (-15.00 = -14.75 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:29 2006