Locus 4233

Sequence ID 2L_DroMel_CAF1
Location 12,112,552 – 12,112,711
Length 159
Max. P 0.999949
window6680 window6681

overview

Window 0

Location 12,112,552 – 12,112,672
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.50
Mean single sequence MFE -31.06
Consensus MFE -29.08
Energy contribution -29.48
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.54
Structure conservation index 0.94
SVM decision value 4.30
SVM RNA-class probability 0.999865
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12112552 120 - 22407834
UGGGAAAUUGAUAUGUCCAUUCAAUUAUGUACUGGUCGUGUCAAUAAACUGAUUGCGAUCGUGUCCAGCAACUUACCGAGCAAUUAGUUUCCCAAUAAGAACAUUCCGAUCAAUAUGAUU
(((((((((((((((.(((..((....))...))).)))))))))..(((((((((..(((.((..........)))))))))))))))))))).............((((.....)))) ( -32.50)
>DroSec_CAF1 14605 120 - 1
UGGGAAAUUGAUAUGUCCAUUCAAUUAUGUACUGGUCGUGUCAAUAAACUGAUUGCGAUCGUGUCCAGCAACUUACCAAGCAAUUAGUUUCCCAAUAAGAACUUUCCGAUCAACAUGAUU
(((((((((((((((.(((..((....))...))).)))))))))..(((((((((....(((..........)))...))))))))))))))).............((((.....)))) ( -32.00)
>DroSim_CAF1 14437 120 - 1
UGGGAAAUUGAUAUGUCCAUUCAAUUAUGUACUGGUCGUGUCAAUAAACUGAUUGCGAUCGUGUCCAGCAACUUACCAAGCAAUUAGUUUCCCAAUAAGAACUUUCCGAUCAAUAUGAUU
(((((((((((((((.(((..((....))...))).)))))))))..(((((((((....(((..........)))...))))))))))))))).............((((.....)))) ( -32.00)
>DroEre_CAF1 14664 120 - 1
UGGGAAAUUGAUAUGUCCAUUCAAUUAUGUGCUGGUCGUGUCAAUAAACUGAUUGCGAUCGUGUCCAGCAACUUACUGACCAAUUAGUUUCCCAAUGAGACCUUUCCCAUCAAUAUGAUU
(((((((((((((((.(((..((....))...))).)))))))))((((((((((.(.(((((..........))).))))))))))))).............))))))........... ( -29.80)
>DroYak_CAF1 14801 120 - 1
UGGGAAAUUGAUAUGUCCAUUCAAUUAUGUGCUGGUCGUGUCAAUAAACUGAUUGCGAUCGUGUCCAGCAACUUACUGACCAAUUAGUUUCCCAAUGAGACCUUUCCCUUCAAUAUGAUU
((((((((((((..((((((......)))((((((((((((((......))).)))))......)))))).......)))..)))))))))))).......................... ( -29.00)
>consensus
UGGGAAAUUGAUAUGUCCAUUCAAUUAUGUACUGGUCGUGUCAAUAAACUGAUUGCGAUCGUGUCCAGCAACUUACCGAGCAAUUAGUUUCCCAAUAAGAACUUUCCGAUCAAUAUGAUU
(((((((((((((((.(((..((....))...))).)))))))))..(((((((((....(((..........)))...))))))))))))))).......................... (-29.08 = -29.48 +   0.40)

alignment

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secondary structure

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dotplot

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Window 1

Location 12,112,592 – 12,112,711
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.82
Mean single sequence MFE -37.92
Consensus MFE -36.16
Energy contribution -35.92
Covariance contribution -0.24
Combinations/Pair 1.08
Mean z-score -3.00
Structure conservation index 0.95
SVM decision value 4.78
SVM RNA-class probability 0.999949
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12112592 119 - 22407834
-UUUGGAGGCACUUAAUAAGCUUUGCUGGUGUGAUUGUGAUGGGAAAUUGAUAUGUCCAUUCAAUUAUGUACUGGUCGUGUCAAUAAACUGAUUGCGAUCGUGUCCAGCAACUUACCGAG
-.((((((((.........))))(((((((..(((((..((.((..(((((((((.(((..((....))...))).)))))))))...)).))..)))))..).)))))).....)))). ( -40.60)
>DroSec_CAF1 14645 120 - 1
UUUUGGAGGCACUUAAUAAGCUUUGCUGGUGUGAUUGUGAUGGGAAAUUGAUAUGUCCAUUCAAUUAUGUACUGGUCGUGUCAAUAAACUGAUUGCGAUCGUGUCCAGCAACUUACCAAG
..((((((((.........))))(((((((..(((((..((.((..(((((((((.(((..((....))...))).)))))))))...)).))..)))))..).)))))).....)))). ( -40.90)
>DroSim_CAF1 14477 119 - 1
-UUUGGAGGCACUUAAUAAGCUUUGCUGGUGUGAUUGUGAUGGGAAAUUGAUAUGUCCAUUCAAUUAUGUACUGGUCGUGUCAAUAAACUGAUUGCGAUCGUGUCCAGCAACUUACCAAG
-.((((((((.........))))(((((((..(((((..((.((..(((((((((.(((..((....))...))).)))))))))...)).))..)))))..).)))))).....)))). ( -40.90)
>DroEre_CAF1 14704 119 - 1
-UUUGGAGGCACUUAAUAAGCUUUUCUGGUGUGAUUGUGAUGGGAAAUUGAUAUGUCCAUUCAAUUAUGUGCUGGUCGUGUCAAUAAACUGAUUGCGAUCGUGUCCAGCAACUUACUGAC
-.(((((.((.........(((.....)))..(((((..((.((..(((((((((.(((..((....))...))).)))))))))...)).))..))))))).)))))............ ( -33.90)
>DroYak_CAF1 14841 119 - 1
-UUUGGAGGCACUUAAUAAGCUUUUCUGAUGUGAUUGUGAUGGGAAAUUGAUAUGUCCAUUCAAUUAUGUGCUGGUCGUGUCAAUAAACUGAUUGCGAUCGUGUCCAGCAACUUACUGAC
-...((((((.........))))))..((..((((((..((.((..(((((((((.(((..((....))...))).)))))))))...)).))..))))))..))(((.......))).. ( -33.30)
>consensus
_UUUGGAGGCACUUAAUAAGCUUUGCUGGUGUGAUUGUGAUGGGAAAUUGAUAUGUCCAUUCAAUUAUGUACUGGUCGUGUCAAUAAACUGAUUGCGAUCGUGUCCAGCAACUUACCGAG
..((((((((.........))))((((((..((((((..((.((..(((((((((.(((..((....))...))).)))))))))...)).))..))))))..).))))).....)))). (-36.16 = -35.92 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:58 2006