Locus 6253

Sequence ID 2L_DroMel_CAF1
Location 17,358,102 – 17,358,234
Length 132
Max. P 0.999205
window9991 window9992

overview

Window 1

Location 17,358,102 – 17,358,214
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.10
Mean single sequence MFE -18.14
Consensus MFE -13.96
Energy contribution -14.56
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.77
SVM decision value 0.08
SVM RNA-class probability 0.574067
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17358102 112 + 22407834
AUUUAUUUUUCAUAACCCACAAUAUGCAGUCGCCC--------CACUGCAGCAAAACCAGAAAAAAUCAAAGCUGAAAAAACACUAAAGAAUAUUUAAGCGGAAUCUGCAAUGGACCUAC
................(((.....((((((.....--------.))))))(((...((.((.....))...(((.......................)))))....)))..)))...... ( -14.80)
>DroSec_CAF1 59971 112 + 1
AUUCAUUUUUCAUAACCCACAAUACGCAGUCGCCC--------CACUGCAGCAAAACCAGAAAAAAUCAAAGCUGAAAAAACACUAAAGAAUAUUUUAGCGGAAUCUGCAAUGGACCUAC
................(((......(((((.....--------.))))).(((...((.((.....))...(((((((...............)))))))))....)))..)))...... ( -17.56)
>DroSim_CAF1 60464 112 + 1
AUUCAUUUUUCAUAACCCACAAUAUGCAGUCGCCC--------CACUGCAGCAAAACCAGAAAAAAUCAAAGCUGAAAAAACACUAAAGAAUAUUUUAGCGGAAUCUGCAAUGGACCUAC
................(((.....((((((.....--------.))))))(((...((.((.....))...(((((((...............)))))))))....)))..)))...... ( -18.26)
>DroEre_CAF1 57326 112 + 1
AUUUAUUUUUCAUAACCCACAAUAUGCAGUCGCCC--------AACUGCAGCAAAACCAGAAAAAAUCAAAGCUGAAAAAACACUAAAGAAUAUUUUAGCGGAAUCUGCAAUGGACCUAC
................(((.....((((((.....--------.))))))(((...((.((.....))...(((((((...............)))))))))....)))..)))...... ( -18.36)
>DroYak_CAF1 53746 120 + 1
AUUCAUUUUUCAUAACCCACAAUAUGCAGUUGCCCAACUGCCCAACUGCAGCAAAACAAGAAAAAAUCAAGGCUGAAAAACCACUAAAGAAUAUUUUAGCGGAAUCUGCAAUGGACCUAC
................(((.....((((((((..(....)..))))))))(((.............(((....)))....((.((((((....)))))).))....)))..)))...... ( -21.70)
>consensus
AUUCAUUUUUCAUAACCCACAAUAUGCAGUCGCCC________CACUGCAGCAAAACCAGAAAAAAUCAAAGCUGAAAAAACACUAAAGAAUAUUUUAGCGGAAUCUGCAAUGGACCUAC
................(((.....((((((..............))))))(((...((.((.....))...(((((((...............)))))))))....)))..)))...... (-13.96 = -14.56 +   0.60)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,358,137 – 17,358,234
Length 97
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 94.21
Mean single sequence MFE -13.28
Consensus MFE -11.90
Energy contribution -12.30
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.33
Structure conservation index 0.90
SVM decision value 3.43
SVM RNA-class probability 0.999205
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17358137 97 + 22407834
---CACUGCAGCAAAACCAGAAAAAAUCAAAGCUGAAAAAACACUAAAGAAUAUUUAAGCGGAAUCUGCAAUGGACCUACCAUUAUUAUACACC--AAAAAA
---....((((.....((.((.....))...(((.......................)))))...))))(((((.....)))))..........--...... ( -10.50)
>DroSec_CAF1 60006 99 + 1
---CACUGCAGCAAAACCAGAAAAAAUCAAAGCUGAAAAAACACUAAAGAAUAUUUUAGCGGAAUCUGCAAUGGACCUACCAUUAUUAUACACACAAAAAAA
---....((((.....((.((.....))...(((((((...............)))))))))...))))(((((.....))))).................. ( -13.96)
>DroSim_CAF1 60499 99 + 1
---CACUGCAGCAAAACCAGAAAAAAUCAAAGCUGAAAAAACACUAAAGAAUAUUUUAGCGGAAUCUGCAAUGGACCUACCAUUAUUAUACACCCAAAAAAA
---....((((.....((.((.....))...(((((((...............)))))))))...))))(((((.....))))).................. ( -13.96)
>DroEre_CAF1 57361 98 + 1
---AACUGCAGCAAAACCAGAAAAAAUCAAAGCUGAAAAAACACUAAAGAAUAUUUUAGCGGAAUCUGCAAUGGACCUACCAUUAUGAUACACACA-AAAAA
---....((((.....((.((.....))...(((((((...............)))))))))...))))(((((.....)))))............-..... ( -13.96)
>DroYak_CAF1 53786 101 + 1
CCCAACUGCAGCAAAACAAGAAAAAAUCAAGGCUGAAAAACCACUAAAGAAUAUUUUAGCGGAAUCUGCAAUGGACCUACCAUUAUUAUACACACA-AAAAA
.(((..(((((...............(((....)))....((.((((((....)))))).))...))))).)))......................-..... ( -14.00)
>consensus
___CACUGCAGCAAAACCAGAAAAAAUCAAAGCUGAAAAAACACUAAAGAAUAUUUUAGCGGAAUCUGCAAUGGACCUACCAUUAUUAUACACACAAAAAAA
.......((((.....((.((.....))...(((((((...............)))))))))...))))(((((.....))))).................. (-11.90 = -12.30 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:27 2006