Locus 2979

Sequence ID	3L_DroMel_CAF1
Location	8,548,637 – 8,548,797
Length	160
Max. P	0.843309

overview

Window 7

Location	8,548,637 – 8,548,757
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.78
Mean single sequence MFE	-45.28
Consensus MFE	-31.27
Energy contribution	-30.25
Covariance contribution	-1.02
Combinations/Pair	1.43
Mean z-score	-1.99
Structure conservation index	0.69
SVM decision value	0.76
SVM RNA-class probability	0.843309
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8548637 120 - 23771897
CCUGUGACGCCGGCAAUCGCAGUCCCAAAGAUUGUGCUGGCGUUAUUCUCUACACCGCCGAGAAAGCCACCAAGGUGGCGCUCGAUGCCAUUCAGAUCCUAGGUGGCAAUGGCUACAUUA
...(((((((((((....((((((.....)))))))))))))))))..........((((((...(((((....))))).)))..((((((..((...))..))))))..)))....... ( -50.90)
>DroVir_CAF1 117 120 - 1
CCUGCGAUGCUGGCGUUCGAAGCAGCAAAGAUUGUGCCGGCGUCAUCUUGUACUGCGCCGAGAAAGCUACGCAAGUGGCUCUGGAUGCCAUACAAAUCCUUGGCGGCAAUGGCUACAUCA
..((((((((((((((.....)).(((.....))))))))))))...........(((((((..((((((....)))))).(((...)))........))))))))))............ ( -42.60)
>DroPse_CAF1 117 120 - 1
CUAGCGAUGCCGGAAACCGCAGCCCCAAGGACUGCGCUGGCGUCAUCUUAUACUGCGCUGAGAAAGCCACCCAAGUAGCACUCGAUGCCAUUCAGAUCCUCGGCGGCAAUGGCUACAUCA
.((((..(((.(....).)))(((((.(((((((...(((((((.(((((........)))))..((.((....)).))....)))))))..))).)))).)).)))....))))..... ( -42.50)
>DroMoj_CAF1 117 120 - 1
CCUGCGAUGCGGGCAUUCGCAGCAGCAAGGACUGCGCCGGCGUCAUCCUGUACAGCGCCGAGAAAGCUACACAGGUGGCCUUGGAAGCCAUUCAGAUUCUGGGCGGCAAUGGCUACAUCA
.....((((..(.((((((((((......).)))))((((.((((.(((((..(((.........)))..))))))))).))))..(((.(((((...))))).))))))).)..)))). ( -42.50)
>DroAna_CAF1 117 120 - 1
CCUGUGACGCUGGAGCACGCAGCUCCAAGGACUGCGCCGGGGUUAUCCUCUACACUGCCGAGAAGGCCACUCAGGUGGCCCUUGAUGCCAUCCAGAUCUUGGGUGGCAAUGGAUACAUCA
((((.(.(((((((((.....))))))......))))))))..(((((..........((((..((((((....)))))))))).((((((((((...))))))))))..)))))..... ( -50.30)
>DroPer_CAF1 1801 120 - 1
CUAGCGAUGCCGGAAACCGCAGCCCCAAGGACUGCGCUGGCGUCAUCUUAUACUGCGCCGAGAAAGCCACCCAAGUAGCACUCGAUGCCAUUCAGAUCCUCGGCGGCAAUGGCUACAUCA
.((((((((((((....(((((((....)).))))))))))))).........(((((((((...((.((....)).))....((......)).....)))))).)))...))))..... ( -42.90)
>consensus
CCUGCGAUGCCGGAAAUCGCAGCCCCAAGGACUGCGCCGGCGUCAUCCUAUACAGCGCCGAGAAAGCCACCCAAGUGGCACUCGAUGCCAUUCAGAUCCUCGGCGGCAAUGGCUACAUCA
...((((((((((....((((((......).)))))))))))))............((((((...(((((....))))).)))...(((............))))))....))....... (-31.27 = -30.25 +  -1.02)

alignment

secondary structure

dotplot

Window 8

Location	8,548,677 – 8,548,797
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	78.06
Mean single sequence MFE	-46.72
Consensus MFE	-31.16
Energy contribution	-30.05
Covariance contribution	-1.11
Combinations/Pair	1.40
Mean z-score	-1.42
Structure conservation index	0.67
SVM decision value	0.47
SVM RNA-class probability	0.747154
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8548677 120 - 23771897
CUGAGUGCGUGCAGGAGCUAUUUGUACACGGUGGCCAGAUCCUGUGACGCCGGCAAUCGCAGUCCCAAAGAUUGUGCUGGCGUUAUUCUCUACACCGCCGAGAAAGCCACCAAGGUGGCG
....(((((.((....))....))))).((((((..(((....(((((((((((....((((((.....)))))))))))))))))..)))...)))))).....(((((....))))). ( -50.40)
>DroVir_CAF1 157 120 - 1
CUGAGCGCGUGCCGGAGCUACUUGUAUGCUGUAGCAAGAUCCUGCGAUGCUGGCGUUCGAAGCAGCAAAGAUUGUGCCGGCGUCAUCUUGUACUGCGCCGAGAAAGCUACGCAAGUGGCU
((..((((((((.((((((((.........)))))..........(((((((((((.....)).(((.....)))))))))))).))).)))).))))..))..((((((....)))))) ( -48.70)
>DroPse_CAF1 157 120 - 1
CUGAGCGCCUGUCGCAGCUAUCUCUAUACUGUGGCCAGAUCUAGCGAUGCCGGAAACCGCAGCCCCAAGGACUGCGCUGGCGUCAUCUUAUACUGCGCUGAGAAAGCCACCCAAGUAGCA
((.((((((((((((((.(((....))))))))).))).......((((((((....(((((((....)).)))))))))))))..........))))).))...((.((....)).)). ( -44.10)
>DroMoj_CAF1 157 120 - 1
CUGGGCGCCUGCCGCAGCUAUUUGUAUUCAGUGGCCCGAGCCUGCGAUGCGGGCAUUCGCAGCAGCAAGGACUGCGCCGGCGUCAUCCUGUACAGCGCCGAGAAAGCUACACAGGUGGCC
((.(((((..((....))....(((((...((((((((.((((((...))))))....((.((((......))))))))).)))))...)))))))))).))...(((((....))))). ( -49.10)
>DroAna_CAF1 157 120 - 1
CUGAGUGCCUGCCGGAGCUACCUAUACACCGUGGCCAGGUCCUGUGACGCUGGAGCACGCAGCUCCAAGGACUGCGCCGGGGUUAUCCUCUACACUGCCGAGAAGGCCACUCAGGUGGCC
((((((((((.((((((..........(((.(((((((.((((.......((((((.....))))))))))))).)))).)))...........)).))).).))).)))))))...... ( -47.71)
>DroPer_CAF1 1841 120 - 1
CUGAGCGCCUGUCGCAGCUAUCUCUAUACUGUGGCCAGAUCUAGCGAUGCCGGAAACCGCAGCCCCAAGGACUGCGCUGGCGUCAUCUUAUACUGCGCCGAGAAAGCCACCCAAGUAGCA
((..(((((((((((((.(((....))))))))).))).......((((((((....(((((((....)).)))))))))))))..........))))..))...((.((....)).)). ( -40.30)
>consensus
CUGAGCGCCUGCCGCAGCUAUCUGUAUACUGUGGCCAGAUCCUGCGAUGCCGGAAAUCGCAGCCCCAAGGACUGCGCCGGCGUCAUCCUAUACAGCGCCGAGAAAGCCACCCAAGUGGCA
((..((((........(((((.........)))))..........((((((((....((((((......).)))))))))))))..........))))..))...(((((....))))). (-31.16 = -30.05 +  -1.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:40 2006