Locus 3661

Sequence ID 2R_DroMel_CAF1
Location 12,153,492 – 12,153,583
Length 91
Max. P 0.757811
window5957 window5958

overview

Window 7

Location 12,153,492 – 12,153,583
Length 91
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 90.50
Mean single sequence MFE -32.16
Consensus MFE -25.42
Energy contribution -25.98
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.66
Structure conservation index 0.79
SVM decision value 0.49
SVM RNA-class probability 0.757811
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12153492 91 + 20766785
AAGUAAGCCUGGUCUUAACGCAAGGUGCAUUUGCCUC-GCC------ACCAACAGGUGCCAUUGGCCAGGUUUGCAAAGGCCCGACUUGCACUUCGCG
..((((((((((((.....((.((((......)))).-))(------(((....)))).....)))))))))))).(((......)))((.....)). ( -33.10)
>DroSec_CAF1 9548 91 + 1
AAGUAAGCCUGGUCUUAACGCAAGGUGCGUUUGCCUC-GCC------ACCAACAGGUGCCAUUGGCCAGGUUUCCAACGGCCAGACUUGCACUUCGCG
..(((((.((((((..(((((.....))))).((((.-(((------(((....)))......))).)))).......)))))).)))))........ ( -31.10)
>DroSim_CAF1 9633 91 + 1
AAGUAAGCCUGGUCUUAACGCAAGGUGCGUUUGCCUC-GCC------ACCAACAGGUGCCAUUGGCCAGGUUUCCAGCGGCCAGACUUGCACUUCGCG
..(((((.((((((....(....)..((....((((.-(((------(((....)))......))).)))).....)))))))).)))))........ ( -31.10)
>DroEre_CAF1 15227 90 + 1
AAGUAAGCCUGGUCUUAACGCAAGGUGCGUUUGCCUC-GAC------ACCAACAGGUGCCAUUGGCAAGGCUUUAA-AGGCCAGACUCGCACUUCGCG
..(..((.((((((((..(....)..((.((((((..-(.(------(((....)))).)...))))))))....)-))))))).))..)........ ( -31.60)
>DroYak_CAF1 15384 97 + 1
AAGUAAGCCUGGUCUUAACGCAAGGUGCGUUUGCCUCCGACAGGCAAACCAACAGGUGCCAUUGGCCAGGCUUUUA-AAGCCAGACUUGCACUUCGCG
....((((((((((....(((....((.((((((((.....))))))))))....))).....))))))))))...-...........((.....)). ( -33.90)
>consensus
AAGUAAGCCUGGUCUUAACGCAAGGUGCGUUUGCCUC_GCC______ACCAACAGGUGCCAUUGGCCAGGUUUCCA_AGGCCAGACUUGCACUUCGCG
..(((((.((((((..(((((.....))))).((((...........(((....)))(((...))).)))).......)))))).)))))........ (-25.42 = -25.98 +   0.56)

alignment

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secondary structure

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dotplot

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Window 8

Location 12,153,492 – 12,153,583
Length 91
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 90.50
Mean single sequence MFE -34.16
Consensus MFE -25.57
Energy contribution -26.01
Covariance contribution 0.44
Combinations/Pair 1.15
Mean z-score -1.75
Structure conservation index 0.75
SVM decision value 0.24
SVM RNA-class probability 0.648915
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12153492 91 - 20766785
CGCGAAGUGCAAGUCGGGCCUUUGCAAACCUGGCCAAUGGCACCUGUUGGU------GGC-GAGGCAAAUGCACCUUGCGUUAAGACCAGGCUUACUU
.((((((.((.......))))))))...(((((.(.....((((....)))------)((-((((........)))))).....).)))))....... ( -32.30)
>DroSec_CAF1 9548 91 - 1
CGCGAAGUGCAAGUCUGGCCGUUGGAAACCUGGCCAAUGGCACCUGUUGGU------GGC-GAGGCAAACGCACCUUGCGUUAAGACCAGGCUUACUU
.((.....))(((((((((((((((........)))))))((((....)))------)((-((((........)))))).......)))))))).... ( -34.70)
>DroSim_CAF1 9633 91 - 1
CGCGAAGUGCAAGUCUGGCCGCUGGAAACCUGGCCAAUGGCACCUGUUGGU------GGC-GAGGCAAACGCACCUUGCGUUAAGACCAGGCUUACUU
.((.....))((((((((((((..(....)..))...((.((((....)))------).)-).))).(((((.....))))).....))))))).... ( -33.60)
>DroEre_CAF1 15227 90 - 1
CGCGAAGUGCGAGUCUGGCCU-UUAAAGCCUUGCCAAUGGCACCUGUUGGU------GUC-GAGGCAAACGCACCUUGCGUUAAGACCAGGCUUACUU
.((.....))((((((((.((-(........((((..(((((((....)))------)))-).))))(((((.....)))))))).)))))))).... ( -35.20)
>DroYak_CAF1 15384 97 - 1
CGCGAAGUGCAAGUCUGGCUU-UAAAAGCCUGGCCAAUGGCACCUGUUGGUUUGCCUGUCGGAGGCAAACGCACCUUGCGUUAAGACCAGGCUUACUU
(((((.((((..(((.((((.-....)))).)))((((((...))))))((((((((.....)))))))))))).))))).((((......))))... ( -35.00)
>consensus
CGCGAAGUGCAAGUCUGGCCU_UGAAAACCUGGCCAAUGGCACCUGUUGGU______GGC_GAGGCAAACGCACCUUGCGUUAAGACCAGGCUUACUU
.((.....))((((((((((((..........((((((((...))))))))..........))))).(((((.....))))).....))))))).... (-25.57 = -26.01 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:11 2006