Locus 6525

Sequence ID 2L_DroMel_CAF1
Location 18,360,403 – 18,360,523
Length 120
Max. P 0.999239
window10412 window10413

overview

Window 2

Location 18,360,403 – 18,360,503
Length 100
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 90.24
Mean single sequence MFE -28.46
Consensus MFE -23.26
Energy contribution -24.02
Covariance contribution 0.76
Combinations/Pair 1.14
Mean z-score -3.50
Structure conservation index 0.82
SVM decision value 3.45
SVM RNA-class probability 0.999239
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18360403 100 - 22407834
CAUUGGCUGCAAUUCACAAAAAGGUUUCCCAACAUUUUAAGGGGUGAUUUUGCACCCUUACACAUGUAUCUAAGCCAAAUGUUGCAGCGACAACAAUGUU
(((((((((((((.........(((((....((((....(((((((......)))))))....))))....)))))....)))))))).....))))).. ( -27.72)
>DroSec_CAF1 204249 99 - 1
CAUUGGCUGCAAUUCACAAAAA-GUUGCCCAACAUGUUAAGGGGUGAUUUUGCACCCUUACACAUGUAUCUAAGCCAAAUGUUGCAGCGACAACAAUGUU
..((((((((((((.......)-)))))...((((((..(((((((......)))))))..)))))).....)))))).(((((......)))))..... ( -31.70)
>DroSim_CAF1 212757 99 - 1
CAUUGGCUGCAAUUCACAAAAA-GUUUCCCAACAUGUUAAGGGGUGAUUUUGCACCCUUACACAUGUAUCUAAACCAAAUGUUGCAGCGACAACAAUGUU
(((((((((((((.........-((((....((((((..(((((((......)))))))..))))))....)))).....)))))))).....))))).. ( -29.44)
>DroEre_CAF1 204651 95 - 1
CAUUGGCUGAAAUUCCAAAAAA-GUUGCCCAACAAUUUUAG-GGUGAAUUUGCACCCUUACAUAUGUAUCUAAGCCAAAUGUUGCAGCGAC---AAUGUU
..((((........))))....-(((((.(((((.....((-((((......))))))(((....)))...........)))))..)))))---...... ( -21.80)
>DroYak_CAF1 214563 99 - 1
CAUUGGCUGCAAUUCACAAAAA-GUUGCUAAACAAUUUUAGGGGUGAAUUUGCACCCCUGCGAAUGUAUCUAAGCAAAAUGUUGCAGCGACAACAAUGUU
(((((((((((((.........-.(((((..(((.((.((((((((......)))))))).)).))).....)))))...)))))))).....))))).. ( -31.62)
>consensus
CAUUGGCUGCAAUUCACAAAAA_GUUGCCCAACAUUUUAAGGGGUGAUUUUGCACCCUUACACAUGUAUCUAAGCCAAAUGUUGCAGCGACAACAAUGUU
(((((((((((((..........(((.....((((((..(((((((......)))))))..)))))).....))).....)))))))).....))))).. (-23.26 = -24.02 +   0.76)

alignment

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secondary structure

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dotplot

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Window 3

Location 18,360,428 – 18,360,523
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 89.51
Mean single sequence MFE -20.37
Consensus MFE -16.08
Energy contribution -17.00
Covariance contribution 0.92
Combinations/Pair 1.16
Mean z-score -1.92
Structure conservation index 0.79
SVM decision value 0.97
SVM RNA-class probability 0.891249
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18360428 95 - 22407834
AUGCCAAUACCUACAGUUUCCAUUGGCUGCAAUUCACAAAAAGGUUUCCCAACAUUUUAAGGGGUGAUUUUGCACCCUUACACAUGUAUCUAAGC
..((((((.............)))))).((............((....)).((((....(((((((......)))))))....))))......)) ( -18.52)
>DroSec_CAF1 204274 94 - 1
AUGCCAAUACCUAGAGUUUCCAUUGGCUGCAAUUCACAAAAA-GUUGCCCAACAUGUUAAGGGGUGAUUUUGCACCCUUACACAUGUAUCUAAGC
..((((((.............)))))).((((((.......)-)))))...((((((..(((((((......)))))))..))))))........ ( -25.32)
>DroSim_CAF1 212782 94 - 1
AUGCCAAUACCUAGAGUUUCCAUUGGCUGCAAUUCACAAAAA-GUUUCCCAACAUGUUAAGGGGUGAUUUUGCACCCUUACACAUGUAUCUAAAC
..((((((.............))))))...............-........((((((..(((((((......)))))))..))))))........ ( -21.82)
>DroEre_CAF1 204673 93 - 1
AUCCCAAUACCUAAAGUUUCCAUUGGCUGAAAUUCCAAAAAA-GUUGCCCAACAAUUUUAG-GGUGAAUUUGCACCCUUACAUAUGUAUCUAAGC
......((((.((.........((((........)))).(((-((((.....)))))))((-((((......))))))....)).))))...... ( -13.60)
>DroYak_CAF1 214588 94 - 1
AUCCCAAUAUCUAAAGUUUCCAUUGGCUGCAAUUCACAAAAA-GUUGCUAAACAAUUUUAGGGGUGAAUUUGCACCCCUGCGAAUGUAUCUAAGC
......................((((.((((.(((.(..(((-((((.....)))))))(((((((......)))))))).))))))).)))).. ( -22.60)
>consensus
AUGCCAAUACCUAAAGUUUCCAUUGGCUGCAAUUCACAAAAA_GUUGCCCAACAUUUUAAGGGGUGAUUUUGCACCCUUACACAUGUAUCUAAGC
..((((((.............))))))........................((((((..(((((((......)))))))..))))))........ (-16.08 = -17.00 +   0.92)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:19 2006