Locus 389

Sequence ID	X_DroMel_CAF1
Location	1,158,754 – 1,158,884
Length	130
Max. P	0.628720

overview

Window 0

Location	1,158,754 – 1,158,855
Length	101
Sequences	4
Columns	117
Reading direction	reverse
Mean pairwise identity	84.15
Mean single sequence MFE	-29.15
Consensus MFE	-21.24
Energy contribution	-22.18
Covariance contribution	0.94
Combinations/Pair	1.04
Mean z-score	-1.60
Structure conservation index	0.73
SVM decision value	0.20
SVM RNA-class probability	0.628720
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1158754 101 - 22224390
CACAUUGCCAGUAGUUCUUGCAGUUGUGGCUCGGCACCACUGGCCCCCCCCAGUCCAGUUGGCCAAUUAGGCCCAUUUGUCUAUAAUUACCGCCAAUACCA----------------
((((((((.((.....)).)))).))))....(((...(((((......))))).(((..((((.....))))...)))............))).......---------------- ( -26.50)
>DroSec_CAF1 18573 100 - 1
CACAUUGCCAGUAGUUCUUGCAGUUGUGGCUCGGCACCACUGGCCC-CCCCAGUCCAGUUGGCCAAUUAGGCCCAUUUGUCUAUAAUUACCGCCAAUACCA----------------
((((((((.((.....)).)))).))))....(((...(((((...-..))))).(((..((((.....))))...)))............))).......---------------- ( -26.30)
>DroSim_CAF1 14552 99 - 1
CACAUUGCCAGUAGUUCUUGCAGUUGUGGCUCGGCACCACUGGCCC--CCCAGUCCAGUUGGCCAAUUAGGCCCAUUUGUCUAUAAUUACCGCCAAUACCA----------------
((((((((.((.....)).)))).))))....(((...(((((...--.))))).(((..((((.....))))...)))............))).......---------------- ( -26.30)
>DroEre_CAF1 23226 108 - 1
CCCAUUGCCAGUUGUUCUGGCAGUCGCGGCGCGGUACC-C-UGCCC--C-----ACAGUUGGCCAAUUAGGCCCAUUUGUCUAUAAUUACCGCCAAUACCAAUAUCUGCCGGUGGGG
(((((((((((.....))))))....((((((((((..-.-.....--.-----((((..((((.....))))...)))).......))))))..(((....)))..))))))))). ( -37.49)
>consensus
CACAUUGCCAGUAGUUCUUGCAGUUGUGGCUCGGCACCACUGGCCC__CCCAGUCCAGUUGGCCAAUUAGGCCCAUUUGUCUAUAAUUACCGCCAAUACCA________________
((((((((.((.....)).))))).)))....(((...(((((......))))).(((..((((.....))))...)))............)))....................... (-21.24 = -22.18 +   0.94)

alignment

secondary structure

dotplot

Window 1

Location	1,158,778 – 1,158,884
Length	106
Sequences	4
Columns	106
Reading direction	reverse
Mean pairwise identity	87.50
Mean single sequence MFE	-31.02
Consensus MFE	-22.06
Energy contribution	-23.75
Covariance contribution	1.69
Combinations/Pair	1.07
Mean z-score	-1.52
Structure conservation index	0.71
SVM decision value	0.05
SVM RNA-class probability	0.559965
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1158778 106 - 22224390
UCACUAAUGGUCGGACUUAGCCACCACUUCACAUUGCCAGUAGUUCUUGCAGUUGUGGCUCGGCACCACUGGCCCCCCCCAGUCCAGUUGGCCAAUUAGGCCCAUU
...(((((((((((.((.((((((.(((.((.((((....))))...)).))).)))))).))..))(((((......)))))......)))).)))))....... ( -30.50)
>DroSec_CAF1 18597 105 - 1
UCACUAAUGGUCGGACUUAGCCACCACUUCACAUUGCCAGUAGUUCUUGCAGUUGUGGCUCGGCACCACUGGCCC-CCCCAGUCCAGUUGGCCAAUUAGGCCCAUU
...(((((((((((.((.((((((.(((.((.((((....))))...)).))).)))))).))..))(((((.(.-.....).))))).)))).)))))....... ( -30.40)
>DroSim_CAF1 14576 104 - 1
UCACUAAUGGUCGGACUUAGCCACCACUUCACAUUGCCAGUAGUUCUUGCAGUUGUGGCUCGGCACCACUGGCCC--CCCAGUCCAGUUGGCCAAUUAGGCCCAUU
...(((((((((((.((.((((((.(((.((.((((....))))...)).))).)))))).))..))((((((..--....).))))).)))).)))))....... ( -30.40)
>DroEre_CAF1 23266 94 - 1
UCUCCAAUGGCCGGAGCUA---ACCACUUCCCAUUGCCAGUUGUUCUGGCAGUCGCGGCGCGGUACC-C-UGCCC--C-----ACAGUUGGCCAAUUAGGCCCAUU
........((((.(.((((---((........((((((((.....)))))))).(.((.((((....-)-))).)--)-----.).))))))).....)))).... ( -32.80)
>consensus
UCACUAAUGGUCGGACUUAGCCACCACUUCACAUUGCCAGUAGUUCUUGCAGUUGUGGCUCGGCACCACUGGCCC__CCCAGUCCAGUUGGCCAAUUAGGCCCAUU
.....((((...(((((.((((((.(((.((....((.....))...)).))).)))))).(((.......)))......)))))....((((.....)))))))) (-22.06 = -23.75 +   1.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:19 2006