Locus 2263

Sequence ID 2L_DroMel_CAF1
Location 6,156,106 – 6,156,257
Length 151
Max. P 0.995639
window3630 window3631

overview

Window 0

Location 6,156,106 – 6,156,207
Length 101
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 72.83
Mean single sequence MFE -25.49
Consensus MFE -4.52
Energy contribution -5.48
Covariance contribution 0.96
Combinations/Pair 1.07
Mean z-score -1.54
Structure conservation index 0.18
SVM decision value 0.04
SVM RNA-class probability 0.552828
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6156106 101 - 22407834
AAUUCAAUUAUUGCCCAAGCAAAAUAUUGAAUCAACGAGGGUA--AGCCA---------------UGUAUAUAAACUUCCCAAUGGCGCCCGAACAGGCUUAAGACCUU--CGCACAGCU
.(((((((..((((....))))...)))))))...(((((((.--.((((---------------(................)))))(((......))).....)))))--))....... ( -27.09)
>DroPse_CAF1 2174 118 - 1
AAUUCAAUUAUUGCCCCCGAACAAUAUUGAAUCAGCAGCAGCAGCAGCAACACCAGUCUGGGAGAGAGAGAUGAGAGCUCUAGAGCCAGAGGA--AAACUUAAGACCUUCUCGCACAGCU
.(((((((.((((........))))))))))).(((.((....)).((....((..(((((.....((((.(....)))))....))))))).--........((.....))))...))) ( -22.90)
>DroSim_CAF1 1966 101 - 1
AAUUCAAUUAUUGCCCAAGCAAAAUAUUGAAUCAACGAGGGUA--AGCCA---------------UGUAUAUAAACUUCCCAAUGGCGCCCGAACAGGCUUAAGACCUU--CGCACAGCU
.(((((((..((((....))))...)))))))...(((((((.--.((((---------------(................)))))(((......))).....)))))--))....... ( -27.09)
>DroYak_CAF1 1935 101 - 1
AAUUCAAUUAUUGCCCAAGCAAAAUAUUGAAUCAACGAGGGUA--AGCCA---------------UGUAUAUAAACUUCCCAGUGGCGCCCGAACAGGCUUAAGACCUU--CGCACAGCU
.(((((((..((((....))))...)))))))...(((((((.--.((((---------------(................)))))(((......))).....)))))--))....... ( -26.79)
>DroPer_CAF1 2155 118 - 1
AAUUCAAUUAUUGCCCCCGAACAAUAUUGAAUCAGCAGCAGCAGCAGCAACACCAGUCUGGGAGAGAGAGAUGAGAGCUCUAGAGGCAGAGGA--AAACUUAAGACCUUCUCGCACAGCU
.(((((((.((((........))))))))))).(((.((....)).((....((.....))((((.((((.(....)))))..((((..(((.--...)))..).)))))))))...))) ( -23.60)
>consensus
AAUUCAAUUAUUGCCCAAGCAAAAUAUUGAAUCAACGAGGGUA__AGCCA_______________UGUAUAUAAACUUCCCAGUGGCGCCCGAACAGGCUUAAGACCUU__CGCACAGCU
.(((((((..((((....))))...))))))).......(((....)))....................................................................... ( -4.52 =  -5.48 +   0.96)

alignment

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secondary structure

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dotplot

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Window 1

Location 6,156,167 – 6,156,257
Length 90
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 68.02
Mean single sequence MFE -23.14
Consensus MFE -3.72
Energy contribution -4.52
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -3.75
Structure conservation index 0.16
SVM decision value 2.60
SVM RNA-class probability 0.995639
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6156167 90 - 22407834
ACCGCCUCUU-CACAACCACAUUUCCAA-----------------------------AGGAAUGUCCCAGUCAUCUAUUAAAUUCAAUUAUUGCCCAAGCAAAAUAUUGAAUCAACGAGG
....((((..-.......(((((((...-----------------------------.)))))))................(((((((..((((....))))...)))))))....)))) ( -16.50)
>DroPse_CAF1 2252 120 - 1
UUCUGCUCUUCCAUAAUUCCCUCUCCAAAGCAGCUGCCAGCGCGGUUUCCUUUAAAGCCGCGUUGCCCAGCCAGCUAUUAAAUUCAAUUAUUGCCCCCGAACAAUAUUGAAUCAGCAGCA
..(((((.....................(((.((((.(((((((((((......)))))))))))..))))..))).....(((((((.((((........))))))))))).))))).. ( -35.50)
>DroSim_CAF1 2027 90 - 1
ACCACCUCUU-CACAACCACAUUUCCAA-----------------------------CGGAAUGUCCCAGCCAUCUAUUAAAUUCAAUUAUUGCCCAAGCAAAAUAUUGAAUCAACGAGG
....((((..-.......(((((((...-----------------------------.)))))))................(((((((..((((....))))...)))))))....)))) ( -16.70)
>DroYak_CAF1 1996 90 - 1
ACCACCACUU-CACUACCAUAUUUCCAA-----------------------------AGGAAUUUCCCAGCCAUCUAUUAAAUUCAAUUAUUGCCCAAGCAAAAUAUUGAAUCAACGAGG
.......(((-(................-----------------------------.((......)).............(((((((..((((....))))...)))))))....)))) ( -11.50)
>DroPer_CAF1 2233 120 - 1
UUCUGCUCUUCCAUAAAUCCCUCUCCAAAGCAGCUGCCAGCGCGGUUUCCUUUAAAGCCGCGUUGCCCAGCCAGCUAUUAAAUUCAAUUAUUGCCCCCGAACAAUAUUGAAUCAGCAGCA
..(((((.....................(((.((((.(((((((((((......)))))))))))..))))..))).....(((((((.((((........))))))))))).))))).. ( -35.50)
>consensus
ACCACCUCUU_CACAACCACAUUUCCAA_____________________________CGGAAUUUCCCAGCCAUCUAUUAAAUUCAAUUAUUGCCCAAGCAAAAUAUUGAAUCAACGAGG
.................................................................................(((((((..((((....))))...)))))))........ ( -3.72 =  -4.52 +   0.80)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:27 2006