Locus 2582

Sequence ID	X_DroMel_CAF1
Location	6,918,197 – 6,918,289
Length	92
Max. P	0.979951

overview

Window 9

Location	6,918,197 – 6,918,289
Length	92
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	73.97
Mean single sequence MFE	-18.11
Consensus MFE	-10.03
Energy contribution	-9.67
Covariance contribution	-0.36
Combinations/Pair	1.20
Mean z-score	-2.19
Structure conservation index	0.55
SVM decision value	1.85
SVM RNA-class probability	0.979951
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6918197 92 + 22224390
A--AAGGAACCCAAAA-------CAUAGCUCAAGUAAUGAGAUCAAGGUGAAAAUUGUAUAAAUAACCUUGAAGA--AGAUAUAAUUCCAAGGUGACUUGGUU
.--.............-------.....((((.....)))).(((((((................)))))))...--..........(((((....))))).. ( -19.49)
>DroSec_CAF1 3185 94 + 1
AAAAAGGAACCCAAAA-------CUCAACUCAAGUAAUGAGAUCAGGGCUAAAACUGUACAAAUAACCUUGAAAA--AGUUAUAAUUCCAAGGUGACUUGGUU
..............((-------((...((((.....)))).((((((..................))))))...--))))......(((((....))))).. ( -17.87)
>DroSim_CAF1 2953 94 + 1
AAAAAGGAACCCAAAA-------CUCAACUCAAGUAAUGAGAUCAGGGCUAAAAUUGUACAAAUAACCUUGACAA--AGUUAAAAUUCCAAGGUGACUUGGUU
.........(((....-------((((((....))..))))....))).(((..((((.(((......)))))))--..))).....(((((....))))).. ( -18.20)
>DroEre_CAF1 11825 101 + 1
A--AAGUAACUCGAAACUCCAAACUAAACUCAAACAAUGAGAUCAAGGCUAAAAUUGUACGAAUAACCUUGGGAAUAAGGUUUAAUUCCAAGGUGACUUGGUU
.--.........................((((.....))))((((((((.......)).......(((((((((.((.....)).)))))))))..)))))). ( -18.80)
>DroYak_CAF1 3347 84 + 1
A--AG--ACUUAAAAACUUCAA--------------AUGAGAUCAAGGCUACAAAUGUACAAAUAACCUUGGAAA-AGAGUACACUUCCAAGGUGACUUCAUU
.--..--..............(--------------(((((.((.....(((....)))......(((((((((.-.........))))))))))).)))))) ( -16.20)
>consensus
A__AAGGAACCCAAAA_______CUCAACUCAAGUAAUGAGAUCAAGGCUAAAAUUGUACAAAUAACCUUGAAAA__AGGUAUAAUUCCAAGGUGACUUGGUU
........................................(((((((((.......)).......((((((.................))))))..))))))) (-10.03 =  -9.67 +  -0.36)

alignment

secondary structure

dotplot

Window 0

Location	6,918,197 – 6,918,289
Length	92
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	73.97
Mean single sequence MFE	-19.74
Consensus MFE	-10.56
Energy contribution	-11.84
Covariance contribution	1.28
Combinations/Pair	1.12
Mean z-score	-2.09
Structure conservation index	0.54
SVM decision value	1.47
SVM RNA-class probability	0.956871
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6918197 92 - 22224390
AACCAAGUCACCUUGGAAUUAUAUCU--UCUUCAAGGUUAUUUAUACAAUUUUCACCUUGAUCUCAUUACUUGAGCUAUG-------UUUUGGGUUCCUU--U
..(((((....)))))..........--...(((((((................))))))).((((..((.........)-------)..))))......--. ( -15.19)
>DroSec_CAF1 3185 94 - 1
AACCAAGUCACCUUGGAAUUAUAACU--UUUUCAAGGUUAUUUGUACAGUUUUAGCCCUGAUCUCAUUACUUGAGUUGAG-------UUUUGGGUUCCUUUUU
...(((((.(((((((((........--.))))))))).))))).........(((((.((.((((..........))))-------.)).)))))....... ( -23.10)
>DroSim_CAF1 2953 94 - 1
AACCAAGUCACCUUGGAAUUUUAACU--UUGUCAAGGUUAUUUGUACAAUUUUAGCCCUGAUCUCAUUACUUGAGUUGAG-------UUUUGGGUUCCUUUUU
...(((((.(((((((((........--)).))))))).))))).........(((((.((.((((..........))))-------.)).)))))....... ( -20.10)
>DroEre_CAF1 11825 101 - 1
AACCAAGUCACCUUGGAAUUAAACCUUAUUCCCAAGGUUAUUCGUACAAUUUUAGCCUUGAUCUCAUUGUUUGAGUUUAGUUUGGAGUUUCGAGUUACUU--U
..(((((....))))).....((((((......))))))(((((...((((((((.((.((.((((.....)))))).)).)))))))).))))).....--. ( -21.50)
>DroYak_CAF1 3347 84 - 1
AAUGAAGUCACCUUGGAAGUGUACUCU-UUUCCAAGGUUAUUUGUACAUUUGUAGCCUUGAUCUCAU--------------UUGAAGUUUUUAAGU--CU--U
(((((..((((((((((((........-))))))))))......(((....))).....))..))))--------------)..............--..--. ( -18.80)
>consensus
AACCAAGUCACCUUGGAAUUAUAACU__UUUUCAAGGUUAUUUGUACAAUUUUAGCCUUGAUCUCAUUACUUGAGUUGAG_______UUUUGGGUUCCUU__U
..(((((....)))))................((((((((............))))))))..((((.....))))............................ (-10.56 = -11.84 +   1.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:18 2006