Locus 2883

Sequence ID 3L_DroMel_CAF1
Location 8,236,949 – 8,237,069
Length 120
Max. P 0.829195
window4504

overview

Window 4

Location 8,236,949 – 8,237,069
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 96.06
Mean single sequence MFE -42.05
Consensus MFE -37.16
Energy contribution -36.80
Covariance contribution -0.36
Combinations/Pair 1.09
Mean z-score -1.52
Structure conservation index 0.88
SVM decision value 0.71
SVM RNA-class probability 0.829195
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8236949 120 - 23771897
CACCGAUAUGUUGGCACCGGAUGUCCUUGAGCUAUGCACGGCAACGUUGUUUGGCCAUUAAGGACAACAUGCCGCAUCGAAUGCUUCUCCACGUUGAUGCGCGGCUGUACCAUGCCCUUG
............((((..((.(((((((((((((.(((((....)).))).))))..)))))))))(((.((((((((.((((........)))))))))..)))))).)).)))).... ( -43.00)
>DroVir_CAF1 77353 120 - 1
CACCGAUAUGUCGGCACCGGAUGUCCUUGAGCAAUGCACGGCAACGUUGUUUGGCCAUUAAGGACGACAUGCCGCAUCGAAUGCUUCUCGACGUUAAUGCGUGGCUGUACCAUGCCCUUG
.......(((((((((...(.(((((((((((...(((((....)).)))...))..))))))))).).))))((((...)))).....)))))....((((((.....))))))..... ( -40.30)
>DroGri_CAF1 73735 120 - 1
CACCGAUAUGUCGGCACCGGAUGUCCUUGAGCAAUGCACGGCAACGUUGUUUGGCCAUUAAGGACGACAUGCCGCAUCGAAUGCUUCUCAACAUUAAUGCGCGGCUGUACCAUGCCCUUG
............((((..((.(((((((((((...(((((....)).)))...))..)))))))))(((.(((((....((((........)))).....)))))))).)).)))).... ( -39.60)
>DroMoj_CAF1 74403 120 - 1
CACCGAUAGGUUGGCACUGGAUGUCCUUGAGCAAUGCAGGGCAACGUUGUUUGGCCAUUAAGGACGACAUGCCGCAUCGAAUGCUUCUCGACGUUAAUGCGCGGCUGUACCAUGCCCUUG
.(((....))).((((.(((.(((((((((((...(((((....).))))...))..)))))))))(((.(((((.((((.......)))).((....)))))))))).))))))).... ( -43.40)
>DroAna_CAF1 61956 120 - 1
CACCGAUAUGUUGGCACCGGAUGUCCUUGAGCUAUGCACGGCAACGUUGUUUGGCCAUUAAGGACAACAUGCCGCAUCGAAUGCUUCUCCACGUUGAUGCGCGGCUGUACCAUGCCCUUG
............((((..((.(((((((((((((.(((((....)).))).))))..)))))))))(((.((((((((.((((........)))))))))..)))))).)).)))).... ( -43.00)
>DroPer_CAF1 62436 120 - 1
CACCGAUAUGUUGGCACCGGAUGUCCUUGAGCUAUGCACGGCAACGUUGUUUGGCCAUUAAGGACAACAUGCCGCAUCGAAUGCUUCUCCACGUUGAUGCGCGGCUGUACCAUGCCCUUG
............((((..((.(((((((((((((.(((((....)).))).))))..)))))))))(((.((((((((.((((........)))))))))..)))))).)).)))).... ( -43.00)
>consensus
CACCGAUAUGUUGGCACCGGAUGUCCUUGAGCAAUGCACGGCAACGUUGUUUGGCCAUUAAGGACAACAUGCCGCAUCGAAUGCUUCUCCACGUUAAUGCGCGGCUGUACCAUGCCCUUG
............((((..((.(((((((((((...(((((....)).)))...))..)))))))))(((.(((((....((((........)))).....)))))))).)).)))).... (-37.16 = -36.80 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:08 2006