Locus 4815

Sequence ID 3L_DroMel_CAF1
Location 13,486,262 – 13,486,382
Length 120
Max. P 0.638169
window7589

overview

Window 9

Location 13,486,262 – 13,486,382
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.56
Mean single sequence MFE -38.23
Consensus MFE -19.40
Energy contribution -19.32
Covariance contribution -0.08
Combinations/Pair 1.45
Mean z-score -2.00
Structure conservation index 0.51
SVM decision value 0.22
SVM RNA-class probability 0.638169
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13486262 120 - 23771897
AACGGCAUUUGGAGGCAAAAGCCAAGGCCACGGAUGAGAACAUAGCACUUGCCUUUCAGGAUCUCAGUGUUCUAAUGGCCAUGGCCAAGGACAUGGUAGGAGUGUCCAAGACAAUAAGCA
...(((.((((....)))).)))..(((((.((...(((((((((..((((.....))))..))..))))))).....)).)))))..((((((.......))))))............. ( -37.10)
>DroVir_CAF1 213 120 - 1
AACGUCACCUAGAAGCAAAGGCCAAGGCAGCGGACGAGAACAUAGCACUUGCGUUUCAGGAUCUGAAUGUUCUCAUGGCUAUGGCAAAGGACAUGGUGGGCUUAUCUAAAAAUAUAAGCA
....(((((......(....((((.(((.......((((((((.((....))...((((...))))))))))))...))).))))....)....)))))((((((........)))))). ( -33.90)
>DroPse_CAF1 182 120 - 1
AGCGGCACCUGGAGGCGAAAGCUAAGGCCACAGAUGAGAACAUUGCACUAGCUUUCCAGGACCUCAGUGUUCUCAUGACCAUGGCCAAGGAUAUGGUGGGCCUGUCCAAGACAAUCAGCG
.(((....)(((((((....))).(((((....((((((((((((......((.....))....)))))))))))).((((((.(....).)))))).))))).)))).........)). ( -42.00)
>DroGri_CAF1 186 120 - 1
AACGUAAUCUUGAAGCAAAGGCCAAGGCGACGGACGAGAAUAUAGCACUUGCUUUUCAGGACUUGAGUGUCCUCAUGGCCAUGGCAAAGGAUAUGGUGGGUCUGUCCAAGAAUAUUAGCA
...(((.(((((........((....))(((((((..(((...(((....))).)))(((((......)))))..(.((((((........)))))).))))))))))))).)))..... ( -35.10)
>DroWil_CAF1 186 120 - 1
AACGUCAUCUGGAGGCCAAAGCCAAGGCUACAGAUGAAAACAUCGCUUUGGCCUUCCAAGAUCUUUCCGUUCUAAUGGCCAUGGCCAAGGAUAUGGUCGGCUUGUCCAAGACGAUCAGUG
..((((....((((((((((((...(....).((((....))))))))))))))))((((.((...(((((((..((((....)))).))).))))..)))))).....))))....... ( -43.70)
>DroAna_CAF1 200 120 - 1
AGCGGAAUUUAGAGGCAAAGGCCAAAGAAACGGAUGAAAACAUUGCAUUGGCCUUCCAGGAUCUUAGUGUUCUGAUGGCCAUGGCCAAGGACAUGGUAGGUUUGUCUAAAACCAUCAGCA
.((.((.((((((((..((((((((.(.....((((....)))).).)))))))))).((((((..(((((((..((((....)))))))))))...)))))).))))))....)).)). ( -37.60)
>consensus
AACGGCAUCUGGAGGCAAAAGCCAAGGCAACGGAUGAGAACAUAGCACUUGCCUUCCAGGAUCUCAGUGUUCUCAUGGCCAUGGCCAAGGACAUGGUGGGCUUGUCCAAGACAAUCAGCA
.........(((((((((..((......................))..)))))...((((.(((..(((((((..((((....)))))))))))...)))))))))))............ (-19.40 = -19.32 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:07 2006