Locus 3041

Sequence ID 3R_DroMel_CAF1
Location 8,088,290 – 8,088,410
Length 120
Max. P 0.999578
window4915 window4916

overview

Window 5

Location 8,088,290 – 8,088,410
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.00
Mean single sequence MFE -41.14
Consensus MFE -39.22
Energy contribution -40.06
Covariance contribution 0.84
Combinations/Pair 1.02
Mean z-score -1.14
Structure conservation index 0.95
SVM decision value 0.18
SVM RNA-class probability 0.623179
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8088290 120 + 27905053
AUGAUUUUUGUAUUCAAAUGCGGAUUGCUCCAACCAGUUUGGGCAGUUCCAAUACCACCCAAGGGAGUGUCCACUGAAUGGCAAGGCGCGCAUCCUGCUGACGGCAGGAUUGGCCCAUCG
..(((..(((((((((...(.((((.(((((......((((((..((......))..))))))))))))))).)))))).))))(((.((.(((((((.....)))))))))))).))). ( -38.80)
>DroSec_CAF1 13164 120 + 1
AUGAUUUUUGUAUUCAAAUGCGGAUUGCUCCAACCAGUUUGGGCAGUUCCCUUACCACCCAAGGGAGUGCCCACUGAAUGGCAAGGCGCGCAUCCUGCUGACGGCAGGAUUGGCCCAUCG
..(((.(((((((....)))))))(((((.....((((..(((((.(((((((.......))))))))))))))))...)))))(((.((.(((((((.....)))))))))))).))). ( -44.50)
>DroSim_CAF1 11984 120 + 1
AUGAUUUUUGUAUUCAAAUGCGGAUUGCUCCAACCAGUUUGGGCAGUUCCCUUACCACCCAAGGGAGUGUCCACUGAAUGGCAAGGCGCGCAUCCUGCUGACGGCAGGAUUGGCCCAACG
......(((((((....)))))))(((((.....((((..(((((.(((((((.......))))))))))))))))...)))))(((.((.(((((((.....))))))))))))..... ( -41.70)
>DroEre_CAF1 14998 120 + 1
AUGAUUUUUGUAUUCAAAUGCGGAUUGCUCCAACCAGUUUGGGCAGUUCCCUCAGCACCCAAGGGAGUGUCCACUGAAUGGCAAGGCGCGCAUCCUGCUGACGGCAGGAUUGGCCCAUCG
..(((.(((((((....)))))))(((((.....((((..(((((.((((((.........)))))))))))))))...)))))(((.((.(((((((.....)))))))))))).))). ( -40.30)
>DroYak_CAF1 8352 120 + 1
AUGAUUUUUGUAUUCAAAUGCGGAUUGCUCCAACCAGUUUGGGCAGUUCCCUCUGCACCCAAGGGAGUGUCCCCUGAAUGGCAAGGCGCGCAUCCUGCUGACGGCAGGAUUGGCCCAUCG
..(((..((((((((...((((((((((.((((.....)))))))).....))))))....((((......)))))))).))))(((.((.(((((((.....)))))))))))).))). ( -40.40)
>consensus
AUGAUUUUUGUAUUCAAAUGCGGAUUGCUCCAACCAGUUUGGGCAGUUCCCUUACCACCCAAGGGAGUGUCCACUGAAUGGCAAGGCGCGCAUCCUGCUGACGGCAGGAUUGGCCCAUCG
......(((((((....)))))))(((((.....((((..(((((.(((((((.......))))))))))))))))...)))))(((.((.(((((((.....))))))))))))..... (-39.22 = -40.06 +   0.84)

alignment

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secondary structure

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dotplot

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Window 6

Location 8,088,290 – 8,088,410
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.00
Mean single sequence MFE -45.18
Consensus MFE -42.26
Energy contribution -43.02
Covariance contribution 0.76
Combinations/Pair 1.03
Mean z-score -2.44
Structure conservation index 0.94
SVM decision value 3.74
SVM RNA-class probability 0.999578
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8088290 120 - 27905053
CGAUGGGCCAAUCCUGCCGUCAGCAGGAUGCGCGCCUUGCCAUUCAGUGGACACUCCCUUGGGUGGUAUUGGAACUGCCCAAACUGGUUGGAGCAAUCCGCAUUUGAAUACAAAAAUCAU
...(((((..(((((((.....)))))))..(..((.((((((((((.((.....)).))))))))))..))..).)))))...((((((((....)))...((((....))))))))). ( -42.20)
>DroSec_CAF1 13164 120 - 1
CGAUGGGCCAAUCCUGCCGUCAGCAGGAUGCGCGCCUUGCCAUUCAGUGGGCACUCCCUUGGGUGGUAAGGGAACUGCCCAAACUGGUUGGAGCAAUCCGCAUUUGAAUACAAAAAUCAU
...(((((..(((((((.....))))))).....(((((((((((((.(((....)))))))))))))))).....)))))...((((((((....)))...((((....))))))))). ( -48.20)
>DroSim_CAF1 11984 120 - 1
CGUUGGGCCAAUCCUGCCGUCAGCAGGAUGCGCGCCUUGCCAUUCAGUGGACACUCCCUUGGGUGGUAAGGGAACUGCCCAAACUGGUUGGAGCAAUCCGCAUUUGAAUACAAAAAUCAU
..((((((..(((((((.....))))))).....(((((((((((((.((.....)).))))))))))))).....))))))..((((((((....)))...((((....))))))))). ( -47.90)
>DroEre_CAF1 14998 120 - 1
CGAUGGGCCAAUCCUGCCGUCAGCAGGAUGCGCGCCUUGCCAUUCAGUGGACACUCCCUUGGGUGCUGAGGGAACUGCCCAAACUGGUUGGAGCAAUCCGCAUUUGAAUACAAAAAUCAU
.((((((((.(((((((.....)))))))..).))))....((((((((((...(((((..(...)..)))))..(((((((.....)))).))).)))))...)))))......))).. ( -42.20)
>DroYak_CAF1 8352 120 - 1
CGAUGGGCCAAUCCUGCCGUCAGCAGGAUGCGCGCCUUGCCAUUCAGGGGACACUCCCUUGGGUGCAGAGGGAACUGCCCAAACUGGUUGGAGCAAUCCGCAUUUGAAUACAAAAAUCAU
...(((((..(((((((.....))))))).....((((..((((((((((.....))))))))))..)))).....)))))...((((((((....)))...((((....))))))))). ( -45.40)
>consensus
CGAUGGGCCAAUCCUGCCGUCAGCAGGAUGCGCGCCUUGCCAUUCAGUGGACACUCCCUUGGGUGGUAAGGGAACUGCCCAAACUGGUUGGAGCAAUCCGCAUUUGAAUACAAAAAUCAU
...(((((..(((((((.....))))))).....(((((((((((((.((.....)).))))))))))))).....)))))...((((((((....)))...((((....))))))))). (-42.26 = -43.02 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:15 2006