Locus 1622

Sequence ID 3L_DroMel_CAF1
Location 4,750,918 – 4,751,009
Length 91
Max. P 0.924672
window2506 window2507

overview

Window 6

Location 4,750,918 – 4,751,009
Length 91
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 90.48
Mean single sequence MFE -23.30
Consensus MFE -20.16
Energy contribution -20.16
Covariance contribution 0.00
Combinations/Pair 1.20
Mean z-score -1.65
Structure conservation index 0.87
SVM decision value 1.16
SVM RNA-class probability 0.924672
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4750918 91 + 23771897
AUUG-CCGUCUCAUUCCAUUUCGCACUGACCUUCUCUUUUCCGCACUCGAAUGAAGUGUGAAUGGGAAAAGCGUUUGGGAAUGAGAUUUUUA
....-..((((((((((....(((.......(((((..(((.(((((.......)))))))).)))))..)))....))))))))))..... ( -26.70)
>DroSec_CAF1 11036 91 + 1
CUCG-CCGUCUCUUUCCAUUUCUCACUGACCUUCUCUCUUCCGCACUCGAAUGAAGUGUGAAUGGGAAAAGCGUUUGGGAAUGAGAUUUUUA
....-..(((((((((((.........((((((.((((...((((((.......))))))...)))).))).))))))))).)))))..... ( -23.40)
>DroSim_CAF1 11672 91 + 1
GUCG-CCGUCUCUUUCCAUUUCGCACUGACCUUCUCUUUUCCGCACUCGAAUGAAGUGUGAAUGGGAAAAGCGUUUGGGAAUGAGAUUUUUA
....-..(((((((((((...(((.......(((((..(((.(((((.......)))))))).)))))..)))..)))))).)))))..... ( -23.20)
>DroEre_CAF1 3572 92 + 1
CACUUUCGUCUCUUUCCACUUCGCACUGACCUUCUCUUUUCCGCACUCUAAUGAAGUGUGAAUAUGAAAAGCGCUUGGGAAUGGGAUUUUUA
.......(((((((((((...(((...((.....))((((((((((((....).)))))).....))))))))..)))))).)))))..... ( -19.80)
>DroYak_CAF1 10001 91 + 1
CUCG-CCAUCUCUUUCCAUUUCGCACUGACCCUCUCUUUUGCGCACUUUAAUGAAGUGUGAAUGUGAAAAGCGUUUGGAAAUGAGAUUUUUA
....-..(((((((((((...(((...(.....)((.....((((((((...)))))))).....))...)))..)))))).)))))..... ( -23.40)
>consensus
CUCG_CCGUCUCUUUCCAUUUCGCACUGACCUUCUCUUUUCCGCACUCGAAUGAAGUGUGAAUGGGAAAAGCGUUUGGGAAUGAGAUUUUUA
.......(((((((((((...(((...(.....)((((...((((((.......))))))...))))...)))..)))))).)))))..... (-20.16 = -20.16 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 4,750,918 – 4,751,009
Length 91
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 90.48
Mean single sequence MFE -21.88
Consensus MFE -17.28
Energy contribution -17.04
Covariance contribution -0.24
Combinations/Pair 1.15
Mean z-score -1.41
Structure conservation index 0.79
SVM decision value -0.00
SVM RNA-class probability 0.533319
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4750918 91 - 23771897
UAAAAAUCUCAUUCCCAAACGCUUUUCCCAUUCACACUUCAUUCGAGUGCGGAAAAGAGAAGGUCAGUGCGAAAUGGAAUGAGACGG-CAAU
......(((((((((....((((((((((((((...........))))).))))))((.....))...)))....)))))))))...-.... ( -25.70)
>DroSec_CAF1 11036 91 - 1
UAAAAAUCUCAUUCCCAAACGCUUUUCCCAUUCACACUUCAUUCGAGUGCGGAAGAGAGAAGGUCAGUGAGAAAUGGAAAGAGACGG-CGAG
......(((((((.((.....((((((((((((...........))))).)))))))....))..)))))))...............-.... ( -21.90)
>DroSim_CAF1 11672 91 - 1
UAAAAAUCUCAUUCCCAAACGCUUUUCCCAUUCACACUUCAUUCGAGUGCGGAAAAGAGAAGGUCAGUGCGAAAUGGAAAGAGACGG-CGAC
......((((.((((....((((((((((((((...........))))).))))))((.....))...)))....)))).))))...-.... ( -21.40)
>DroEre_CAF1 3572 92 - 1
UAAAAAUCCCAUUCCCAAGCGCUUUUCAUAUUCACACUUCAUUAGAGUGCGGAAAAGAGAAGGUCAGUGCGAAGUGGAAAGAGACGAAAGUG
......(((..(((.((.((.((((((...(((.(((((.....))))).)))...))))))))...)).)))..))).....((....)). ( -20.90)
>DroYak_CAF1 10001 91 - 1
UAAAAAUCUCAUUUCCAAACGCUUUUCACAUUCACACUUCAUUAAAGUGCGCAAAAGAGAGGGUCAGUGCGAAAUGGAAAGAGAUGG-CGAG
.....(((((.((((((.................(((((.....)))))((((...((.....))..))))...)))))))))))..-.... ( -19.50)
>consensus
UAAAAAUCUCAUUCCCAAACGCUUUUCCCAUUCACACUUCAUUCGAGUGCGGAAAAGAGAAGGUCAGUGCGAAAUGGAAAGAGACGG_CGAG
......((((.((((((.((.((((((...(((.(((((.....))))).)))...))))))))...))......)))).))))........ (-17.28 = -17.04 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:06 2006