Locus 1533

Sequence ID 3R_DroMel_CAF1
Location 4,376,386 – 4,376,489
Length 103
Max. P 0.536599
window2542

overview

Window 2

Location 4,376,386 – 4,376,489
Length 103
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 84.01
Mean single sequence MFE -39.97
Consensus MFE -28.71
Energy contribution -28.72
Covariance contribution 0.00
Combinations/Pair 1.16
Mean z-score -1.83
Structure conservation index 0.72
SVM decision value 0.01
SVM RNA-class probability 0.536599
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4376386 103 - 27905053
UAUGUAU------GCGCCC-CUCGGCUGUGGAACAAGGUCCUUGAGUUUCCGUU-UGCAUU-UUGGGGCCGACCCAUCC-AAAGAUGGGUUUAUCUACGGCGAGGGCCAGAGA
......(------(.((((-.(((.(((((((....((((((.((((.......-...)))-).))))))((((((((.-...))))))))..)))))))))))))))).... ( -42.90)
>DroSec_CAF1 63452 101 - 1
UAUGUAU------GUGCCC-CUCGGCUGUGGAACAAGGUCCUUGAGUUUCCGUU-UGCAUU-UUGGGGCCGACCCUUUU---GGACGGGUUUAUCUACGGCGAGGGCCAGAGA
......(------.((.((-((((.(((((((....((((((.((((.......-...)))-).))))))(((((....---....)))))..))))))))))))).)).).. ( -38.60)
>DroSim_CAF1 53827 97 - 1
U----GA------GCGCCC-CUCGGCUGUGGAACAAGGUCCUUGAGUUUCCGUU-UGCAUU-UUGGGGCCGACCCUUUU---GGACGGGUUUAUCUACGGCGAGGGCCAGAGA
.----..------..(.((-((((.(((((((....((((((.((((.......-...)))-).))))))(((((....---....)))))..))))))))))))).)..... ( -37.50)
>DroEre_CAF1 64759 106 - 1
UAUGUAUGGCCCAGCGCC--CUCGGCUGUGGAACAAGGUCCUUGAGUUUCCGCU-UGCAUU-UUGGGACCGACCCUUUU---GGACGGGUUUAUCUACGGCGAGGGCCAGAGA
.............(.(((--((((.(((((((....((((((.((((.......-...)))-).))))))(((((....---....)))))..)))))))))))))))..... ( -41.30)
>DroYak_CAF1 56061 107 - 1
UAUGUGUGGUAUAGCGCCC-CUCGGCUGUGGAACAAGGUCCUUGAGUUUCCGUU-UGCAUU-UUGGGGCCGACCCUUUU---GGACGGGUUUAUCUACGGCGAGGGCCAGAGA
...((((......))))((-((((.(((((((....((((((.((((.......-...)))-).))))))(((((....---....)))))..)))))))))))))....... ( -39.20)
>DroAna_CAF1 61491 105 - 1
UACGAA--------UGCCCCUUGGGGUGUGGGGCAAGGUCCUUGAGUUUCCGUUUUGCAUUUUUGGGGCCGACCCCAUUACAAGGGGGGUUUAUCUAUGGCGAAACCGAGAGA
...(((--------(.(((((((....((((((...((((((.(((..............))).))))))..))))))..))))))).)))).(((.(((.....)))))).. ( -40.34)
>consensus
UAUGUAU______GCGCCC_CUCGGCUGUGGAACAAGGUCCUUGAGUUUCCGUU_UGCAUU_UUGGGGCCGACCCUUUU___GGACGGGUUUAUCUACGGCGAGGGCCAGAGA
...............(((..((((.(((((((....((((((.((((.........)).))...))))))(((((.((.....)).)))))..))))))))))))))...... (-28.71 = -28.72 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:57 2006