Locus 2786

Sequence ID	3L_DroMel_CAF1
Location	7,906,001 – 7,906,111
Length	110
Max. P	0.914978

overview

Window 9

Location	7,906,001 – 7,906,111
Length	110
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.63
Mean single sequence MFE	-34.80
Consensus MFE	-21.75
Energy contribution	-22.30
Covariance contribution	0.56
Combinations/Pair	1.24
Mean z-score	-1.84
Structure conservation index	0.62
SVM decision value	1.10
SVM RNA-class probability	0.914725
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7906001 110 + 23771897
UCUUCACUCUCCUCGUUGUCCUGGAAGGACAGCUCUUGGUAGAGAUUGUUAUCCGAGCGCUGCUCCUUUUUGGUAGUCGAGCGACCAACUGGGGUAUGGG----------AGUUUGGAUU
(((..((((((((((....((..((((((((((.((((((((......))).))))).)))).))))))..))....))))..(((......)))..)))----------)))..))).. ( -40.40)
>DroVir_CAF1 7671 119 + 1
UCUUCGCUCUCUUCGUUAUCCUGGAAGGACAAUUCUUGGUAUAGAUUAUUGUCCGAGCGCUGUUCCUUUUUGGUGGUCGAACGACCAACUUGGAUUGGUUCGGGUU-UAUUUUAUGUAUU
....(((((..((((......)))).((((((((((......)))..))))))))))))(((..((..((..((((((....)))))..)..))..))..)))...-............. ( -32.70)
>DroGri_CAF1 7333 119 + 1
UCUUCGCUCUCUUCGUUAUCCGGGAAGGACAAUUCUUGGUAGAGAUUAUUGUCCGAGCGGUGCUCCUUUUUGGUAGUCGAACGACCAACUGGGAUUGGUUUUAUUU-UUAUAUUUGUAUU
...(((((((((.((.....))))).(((((((((((....))))..)))))))))))))...((((..(((((.(.....).)))))..))))............-............. ( -30.60)
>DroWil_CAF1 6320 104 + 1
UCUUCGCUUUCUUCGUUAUCCUGGAAGGAUAACUCUUGGUAUAGAUUAUUAUCCGUGCGUUGCUCCUUUUUGGUAGUGGAACGACCAACUGGUACAAGAC----------AGGU------
.....((((.....(((((((.....)))))))((((((((..(((....)))..))).(..((((.....)).))..)....(((....))).))))).----------))))------ ( -25.00)
>DroMoj_CAF1 7370 120 + 1
UCUUCACUCUCUUCGUUAUCCUGGAAGGACAACUCUUGGUACAGAUUGUUGUCCGAGCGUUGCUCCUUCUUGGUGGUCGAACGACCAACUGGGUUGGGGUUGGGUUUUGUUUUAUAUAUG
.((..((((..((((....((.(((((((((((.(((((.((((....))))))))).)))).))))))).))....))))(((((.....)))))))))..))................ ( -40.20)
>DroAna_CAF1 5125 108 + 1
UCUUCACUCUCCUCAUUGUCCUGGAAGGACAGCUCUUGGUAGAGGUUGUUGUCCGACCUUUGCUCCUUCUUGGUGGUCGAUCGACCAACUGGG--AUGGG----------GUUUUGGAUC
..((((....(((((((((((.....)))))).....(((((((((((.....)))))))))))...(((..((((((....)))).))..))--)))))----------)...)))).. ( -39.90)
>consensus
UCUUCACUCUCUUCGUUAUCCUGGAAGGACAACUCUUGGUAGAGAUUAUUGUCCGAGCGUUGCUCCUUUUUGGUAGUCGAACGACCAACUGGGAUAGGGU__________UUUUUGUAUU
.........((((((....((..((((((((((.(((((.............))))).)))).))))))..))....)))).))((....))............................ (-21.75 = -22.30 +   0.56)

alignment

secondary structure

dotplot

Window 0

Location	7,906,001 – 7,906,111
Length	110
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.63
Mean single sequence MFE	-26.50
Consensus MFE	-18.02
Energy contribution	-17.75
Covariance contribution	-0.27
Combinations/Pair	1.32
Mean z-score	-1.65
Structure conservation index	0.68
SVM decision value	1.10
SVM RNA-class probability	0.914978
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7906001 110 - 23771897
AAUCCAAACU----------CCCAUACCCCAGUUGGUCGCUCGACUACCAAAAAGGAGCAGCGCUCGGAUAACAAUCUCUACCAAGAGCUGUCCUUCCAGGACAACGAGGAGAGUGAAGA
..((...(((----------(((..........(((((....)))))((...(((((.((((.((.((.((........)))).)).)))))))))...)).......)).))))...)) ( -27.60)
>DroVir_CAF1 7671 119 - 1
AAUACAUAAAAUA-AACCCGAACCAAUCCAAGUUGGUCGUUCGACCACCAAAAAGGAACAGCGCUCGGACAAUAAUCUAUACCAAGAAUUGUCCUUCCAGGAUAACGAAGAGAGCGAAGA
.............-............(((...(((((.(.....).)))))...)))....((((((((((((..(((......)))))))))).....(.....).....))))).... ( -25.30)
>DroGri_CAF1 7333 119 - 1
AAUACAAAUAUAA-AAAUAAAACCAAUCCCAGUUGGUCGUUCGACUACCAAAAAGGAGCACCGCUCGGACAAUAAUCUCUACCAAGAAUUGUCCUUCCCGGAUAACGAAGAGAGCGAAGA
.............-............(((...(((((.(.....).)))))...)))....((((((((((((..(((......))))))))))....((.....))....))))).... ( -27.00)
>DroWil_CAF1 6320 104 - 1
------ACCU----------GUCUUGUACCAGUUGGUCGUUCCACUACCAAAAAGGAGCAACGCACGGAUAAUAAUCUAUACCAAGAGUUAUCCUUCCAGGAUAACGAAGAAAGCGAAGA
------.(((----------((.((((.((..(((((.(.....).)))))...)).)))).))).)).......(((......)))(((((((.....))))))).............. ( -25.00)
>DroMoj_CAF1 7370 120 - 1
CAUAUAUAAAACAAAACCCAACCCCAACCCAGUUGGUCGUUCGACCACCAAGAAGGAGCAACGCUCGGACAACAAUCUGUACCAAGAGUUGUCCUUCCAGGAUAACGAAGAGAGUGAAGA
(((..............(((((.........)))))((.((((....((..((((((.((((.((.(((((......))).)).)).))))))))))..))....))))..))))).... ( -28.40)
>DroAna_CAF1 5125 108 - 1
GAUCCAAAAC----------CCCAU--CCCAGUUGGUCGAUCGACCACCAAGAAGGAGCAAAGGUCGGACAACAACCUCUACCAAGAGCUGUCCUUCCAGGACAAUGAGGAGAGUGAAGA
..........----------....(--((((((((..(((((...(.((.....)).)....)))))..))))...((((....)))).(((((.....))))).)).)))......... ( -25.70)
>consensus
AAUACAAAAA__________ACCCUAUCCCAGUUGGUCGUUCGACCACCAAAAAGGAGCAACGCUCGGACAACAAUCUCUACCAAGAGUUGUCCUUCCAGGAUAACGAAGAGAGCGAAGA
...............................(((((((....)))).((.....)))))..((((((((((((..(((......)))))))))).....(.....).....))))).... (-18.02 = -17.75 +  -0.27)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:38 2006