Locus 8470

Sequence ID	X_DroMel_CAF1
Location	21,033,818 – 21,033,938
Length	120
Max. P	0.993892

overview

Window 1

Location	21,033,818 – 21,033,938
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.33
Mean single sequence MFE	-40.88
Consensus MFE	-36.72
Energy contribution	-36.44
Covariance contribution	-0.28
Combinations/Pair	1.14
Mean z-score	-2.00
Structure conservation index	0.90
SVM decision value	2.43
SVM RNA-class probability	0.993892
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21033818 120 + 22224390
GUCUUGGGGGAAAUGAUGAUGUCGCCCACGGACAUGCUCCUGGAACUGAUUUUGUUUGCCCGAUAGGCGACAAAAAGUCAAAUUGUGGCAGCCAAUUAACAGCAGCCAUCCCCUAGGCGC
((((.((((((..((((..(((((((..(((.((.((................)).)).)))...)))))))....)))).....((((.((.........)).)))))))))))))).. ( -41.29)
>DroSec_CAF1 4468 119 + 1
GUCUUGG-GGAAAUGAUGAUGUCGCUCACGGACAUGCCCCUGGAACUGAUUUUGUUUGCCCGAUAGGCGACAAAAAGUCAAAUUGUGGCAGCCAAUUAACAGCAGCCAUCCCCCAGGCAC
((((.((-(((..((((..(((((((..(((.((......))((((.......))))..)))...)))))))....)))).....((((.((.........)).))))))))).)))).. ( -38.20)
>DroSim_CAF1 5014 119 + 1
GUCUUGG-GGAAAUGAUGAUGUCGCCCACGGACAUGCCCCUGGAACUGAUUUUGUUUGCCCGAUAGGCGACAAAAAGUCAAAUUGUGGCAGCCAAUUAACAGCAGCCAUCCCCCAGGCAC
((((.((-(((..((((..(((((((..(((.((......))((((.......))))..)))...)))))))....)))).....((((.((.........)).))))))))).)))).. ( -40.10)
>DroEre_CAF1 4574 119 + 1
GUCUUG-GGGAAAUGAUGAUGUCGCCCACGGACAUGCCCCUGGAACUGAUUCUGUUUGCCCGAUAGGCGACAAAAAGUCAAAUUGUGGCAGCCAAUUAACAGCAGCCAUUCCCCAGGCAC
((((.(-(((((.((((..(((((((..(((.((.((....((((....)))))).)).)))...)))))))....)))).....((((.((.........)).)))))))))))))).. ( -42.00)
>DroYak_CAF1 5028 120 + 1
AUCUUGGGGGAAAUGAUGAUGUCGCCCACGGACAUGCCCCUGGAACUGAUUCUGUUUGCCCGAUAGGCGACAAAAAGUCAAAUUGUGGCAGCCAAUUAACAGCAGCCAUCCCCCGGGCAC
..(((((((((..((((..(((((((..(((.((.((....((((....)))))).)).)))...)))))))....)))).....((((.((.........)).)))))))))))))... ( -42.80)
>consensus
GUCUUGGGGGAAAUGAUGAUGUCGCCCACGGACAUGCCCCUGGAACUGAUUUUGUUUGCCCGAUAGGCGACAAAAAGUCAAAUUGUGGCAGCCAAUUAACAGCAGCCAUCCCCCAGGCAC
..(((((((((..((((..(((((((..(((.((.((....((((....)))))).)).)))...)))))))....)))).....((((.((.........)).)))))))))))))... (-36.72 = -36.44 +  -0.28)

alignment

secondary structure

dotplot

Window 2

Location	21,033,818 – 21,033,938
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.33
Mean single sequence MFE	-43.14
Consensus MFE	-36.84
Energy contribution	-38.04
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-2.07
Structure conservation index	0.85
SVM decision value	1.83
SVM RNA-class probability	0.979109
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21033818 120 - 22224390
GCGCCUAGGGGAUGGCUGCUGUUAAUUGGCUGCCACAAUUUGACUUUUUGUCGCCUAUCGGGCAAACAAAAUCAGUUCCAGGAGCAUGUCCGUGGGCGACAUCAUCAUUUCCCCCAAGAC
....((.((((.((((.((((.....)))).)))).....(((.....(((((((((.((((((..........((((...)))).)))))))))))))))...)))....)))).)).. ( -41.90)
>DroSec_CAF1 4468 119 - 1
GUGCCUGGGGGAUGGCUGCUGUUAAUUGGCUGCCACAAUUUGACUUUUUGUCGCCUAUCGGGCAAACAAAAUCAGUUCCAGGGGCAUGUCCGUGAGCGACAUCAUCAUUUCC-CCAAGAC
((.(((((((..((((.((((.....)))).))))....((((..((((((.(((.....)))..))))))))))))))))).))((((((....).)))))..........-....... ( -38.50)
>DroSim_CAF1 5014 119 - 1
GUGCCUGGGGGAUGGCUGCUGUUAAUUGGCUGCCACAAUUUGACUUUUUGUCGCCUAUCGGGCAAACAAAAUCAGUUCCAGGGGCAUGUCCGUGGGCGACAUCAUCAUUUCC-CCAAGAC
.....(((((((((((.((((.....)))).)))).....(((.....(((((((((.((((((..(....((.......)).)..)))))))))))))))...))).))))-))).... ( -43.60)
>DroEre_CAF1 4574 119 - 1
GUGCCUGGGGAAUGGCUGCUGUUAAUUGGCUGCCACAAUUUGACUUUUUGUCGCCUAUCGGGCAAACAGAAUCAGUUCCAGGGGCAUGUCCGUGGGCGACAUCAUCAUUUCCC-CAAGAC
.....(((((((((((.((((.....)))).)))).....(((.....(((((((((.((((((..(.(((....)))....)...)))))))))))))))...))).)))))-)).... ( -44.90)
>DroYak_CAF1 5028 120 - 1
GUGCCCGGGGGAUGGCUGCUGUUAAUUGGCUGCCACAAUUUGACUUUUUGUCGCCUAUCGGGCAAACAGAAUCAGUUCCAGGGGCAUGUCCGUGGGCGACAUCAUCAUUUCCCCCAAGAU
......((((((((((.((((.....)))).)))).....(((.....(((((((((.((((((..(.(((....)))....)...)))))))))))))))...)))..))))))..... ( -46.80)
>consensus
GUGCCUGGGGGAUGGCUGCUGUUAAUUGGCUGCCACAAUUUGACUUUUUGUCGCCUAUCGGGCAAACAAAAUCAGUUCCAGGGGCAUGUCCGUGGGCGACAUCAUCAUUUCCCCCAAGAC
......((((((((((.((((.....)))).)))).....(((.....(((((((((.((((((..(....((.......)).)..)))))))))))))))...)))..))))))..... (-36.84 = -38.04 +   1.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:46 2006