Locus 5772

Sequence ID	3L_DroMel_CAF1
Location	15,649,504 – 15,649,611
Length	107
Max. P	0.802188

overview

Window 9

Location	15,649,504 – 15,649,611
Length	107
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	79.43
Mean single sequence MFE	-38.83
Consensus MFE	-24.09
Energy contribution	-25.52
Covariance contribution	1.42
Combinations/Pair	1.26
Mean z-score	-1.77
Structure conservation index	0.62
SVM decision value	0.50
SVM RNA-class probability	0.759938
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15649504 107 + 23771897
CGGGUUACAAUGCUUGGCUCUCCAAGCGCAUCUCACCUGAGCGAUCGCUCUACGAUAUGCGACAUCGCAGGUGAGUGGC-GAGAGAAUAAG---CUUCAAGAGCUUGCAGA
((((((.....(((((..((((....(((..(((((((((((....))))........(((....))))))))))..))-).)))).))))---)......)))))).... ( -40.00)
>DroVir_CAF1 71786 100 + 1
CGGGUUAUAAUGCCUGGCUCUCAGAGCGCAUAUCACCAGCGCGUAAGCUUUUCGAUAUGCGGCAUCGCAGGUGAGUCGC-GGCAG-----CCAAGUAUAAGAGCCU-----
.(((((...((((.(((((((....(((....(((((...((....)).........((((....)))))))))..)))-)).))-----))).))))...)))))----- ( -35.10)
>DroSim_CAF1 9196 107 + 1
CGGGUUACAAUGCUUGGCUCUCCAAGCGCAUCUCACCUGAGCGAUCGCUCUACGACAUGCGACAUCGCAGGUGAGUGGC-GAGAGAAUAAG---CUUUAAGAGCUUGCAGA
((((((.....(((((..((((....(((..(((((((((((....))))........(((....))))))))))..))-).)))).))))---)......)))))).... ( -40.00)
>DroEre_CAF1 9624 106 + 1
CGGGUUACAAUGCUUGGCUCUCCAAGCGCAUCUCACCUGAGCGAACGCUCUACGACAUGCGACAUCGCAGGUGAGUGG--GAGAGCACUGG---CUAUAAGAGCUUGCCGA
((((((.....(((..(((((((.....((.(((((((((((....))))........(((....)))))))))))))--))))))...))---)......)))))).... ( -41.60)
>DroYak_CAF1 9255 107 + 1
CGGGUUACAAUGCUUGGCUCUCCAAGCGCAUCUCACCUGAGCGAACGCUCUACGACAUGCGACAUCGCAGGUGAGUGGC-GAGAGUAUUAG---CUACAAGAGAUUGCUGA
(((((......)))))((((((...((.((.(((((((((((....))))........(((....))))))))))))))-)))))).((((---(...........))))) ( -38.10)
>DroAna_CAF1 68847 107 + 1
UGGGCUUCAACAGCUGGCUCUCGCAGCGCAUCUCUUCGGAGCGCUCGCUCUACGACAUGCGGCAUCGCAGGUGAGUCCGGAAGAG-AGUGU---CUUCAAGAGCUUGGAAU
..((((.....))))((((((.(.(((((.((((((((((((....)))))..(((.((((....)))).....)))..))))))-)))).---)).).))))))...... ( -38.20)
>consensus
CGGGUUACAAUGCUUGGCUCUCCAAGCGCAUCUCACCUGAGCGAACGCUCUACGACAUGCGACAUCGCAGGUGAGUGGC_GAGAG_AUUAG___CUACAAGAGCUUGCAGA
((((((....(((((((....)))))))...((((((.((((....)))).......((((....))))))))))..........................)))))).... (-24.09 = -25.52 +   1.42)

alignment

secondary structure

dotplot

Window 0

Location	15,649,504 – 15,649,611
Length	107
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	79.43
Mean single sequence MFE	-38.17
Consensus MFE	-22.65
Energy contribution	-24.32
Covariance contribution	1.67
Combinations/Pair	1.12
Mean z-score	-1.98
Structure conservation index	0.59
SVM decision value	0.62
SVM RNA-class probability	0.802188
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15649504 107 - 23771897
UCUGCAAGCUCUUGAAG---CUUAUUCUCUC-GCCACUCACCUGCGAUGUCGCAUAUCGUAGAGCGAUCGCUCAGGUGAGAUGCGCUUGGAGAGCCAAGCAUUGUAACCCG
..(((..((((((.(((---(.((...((((-(((.......((((((((...))))))))((((....)))).))))))))).)))).))))))...))).......... ( -40.80)
>DroVir_CAF1 71786 100 - 1
-----AGGCUCUUAUACUUGG-----CUGCC-GCGACUCACCUGCGAUGCCGCAUAUCGAAAAGCUUACGCGCUGGUGAUAUGCGCUCUGAGAGCCAGGCAUUAUAACCCG
-----.((((((((.....((-----(...(-(((.......))))..)))((((((((...(((......)))..))))))))....))))))))............... ( -36.50)
>DroSim_CAF1 9196 107 - 1
UCUGCAAGCUCUUAAAG---CUUAUUCUCUC-GCCACUCACCUGCGAUGUCGCAUGUCGUAGAGCGAUCGCUCAGGUGAGAUGCGCUUGGAGAGCCAAGCAUUGUAACCCG
...(((((((.....))---)))....((((-(((((..((.((((....)))).)).)).((((....)))).))))))).))((((((....))))))........... ( -38.60)
>DroEre_CAF1 9624 106 - 1
UCGGCAAGCUCUUAUAG---CCAGUGCUCUC--CCACUCACCUGCGAUGUCGCAUGUCGUAGAGCGUUCGCUCAGGUGAGAUGCGCUUGGAGAGCCAAGCAUUGUAACCCG
..(((...........)---)).(.((((((--(((((((((((((....)))........((((....))))))))))).)).....))))))))............... ( -37.50)
>DroYak_CAF1 9255 107 - 1
UCAGCAAUCUCUUGUAG---CUAAUACUCUC-GCCACUCACCUGCGAUGUCGCAUGUCGUAGAGCGUUCGCUCAGGUGAGAUGCGCUUGGAGAGCCAAGCAUUGUAACCCG
...(((.......(((.---....)))((((-(((((..((.((((....)))).)).)).((((....)))).))))))))))((((((....))))))........... ( -36.40)
>DroAna_CAF1 68847 107 - 1
AUUCCAAGCUCUUGAAG---ACACU-CUCUUCCGGACUCACCUGCGAUGCCGCAUGUCGUAGAGCGAGCGCUCCGAAGAGAUGCGCUGCGAGAGCCAGCUGUUGAAGCCCA
.......(((((((.((---.(.((-((((((.((((((.((((((((.......))))))).).)))...)))))))))).).))).)))))))..(((.....)))... ( -39.20)
>consensus
UCUGCAAGCUCUUAAAG___CUAAU_CUCUC_GCCACUCACCUGCGAUGUCGCAUGUCGUAGAGCGAUCGCUCAGGUGAGAUGCGCUUGGAGAGCCAAGCAUUGUAACCCG
...((((.............................((((((((((....)))).......((((....)))).))))))....((((((....)))))).))))...... (-22.65 = -24.32 +   1.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:32 2006