Locus 6323

Sequence ID	3R_DroMel_CAF1
Location	16,521,234 – 16,521,363
Length	129
Max. P	0.984728

overview

Window 4

Location	16,521,234 – 16,521,334
Length	100
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	92.59
Mean single sequence MFE	-38.00
Consensus MFE	-34.18
Energy contribution	-35.18
Covariance contribution	1.00
Combinations/Pair	1.13
Mean z-score	-1.74
Structure conservation index	0.90
SVM decision value	1.98
SVM RNA-class probability	0.984728
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16521234 100 + 27905053
AAGACAAGUGUGGCUGCAAGUCAAGGCCCAGGACUCGGCUCAAGUUGAGCCUUUCUGCCAGUGGCAGCUCGCACGAAAGUUGCCGGAUCCUUUCCGUUUU
(((((..((((((((((.......(((..(((.((((((....)))))))))....)))....))))).)))))..........(((.....)))))))) ( -35.70)
>DroSec_CAF1 76923 100 + 1
AAGACAAGUGUGGCUGCAAGUCAAGGCCCAGGACUCGGCUCAAGUUGGGCCUGGCUGCCAGGGGCAGCUCGCACCAAAGUUGCCGGAUCCUUUCCGUUUC
.((((..((((((((((...((..((((((((.((((((....)))))))))))..)))..))))))).)))))..........(((.....))))))). ( -40.20)
>DroSim_CAF1 81556 100 + 1
AAGACAAGUGUGGCUGCAAGUCAAGGCCCAGGACUCGGCUCAAGUUGAGCCUGGCUGCCAGGGGCAGCUCGCACGAAAGUUGCCGGAUCCUUUCCGUUUC
..(((..((((((((((...((..((((((((.((((((....)))))))))))..)))..))))))).)))))....)))..((((.....)))).... ( -42.10)
>DroEre_CAF1 79210 98 + 1
AAGACAAGU--GGCUGCAAGUGAAGGCCCAGGACUCGGUUCAAGCUGAGCCUGGAUGCCAGGGGCAGCUCGCACGAAAGUUGCCGGAUCCUUUCCGUUUC
.((((..(.--.(((....(((..((((((((.((((((....))))))))))).((((...)))))))..)))...)))..).(((.....))))))). ( -39.80)
>DroYak_CAF1 73781 98 + 1
AAGACAAGU--GGCUUUAAGUCAAGGCCCAGGACUCGGUUCAAGCUGAGCCUAACUGCCAGGAGCAGCUCGCACGAAAGUUGCCGGAUCCUUUCCGUUUC
.((((..(.--((((((.....)))))))((((..((((...(((((..(((.......)))..)))))...((....)).))))..))))....)))). ( -32.20)
>consensus
AAGACAAGUGUGGCUGCAAGUCAAGGCCCAGGACUCGGCUCAAGUUGAGCCUGGCUGCCAGGGGCAGCUCGCACGAAAGUUGCCGGAUCCUUUCCGUUUC
..(((..((((((((((.......((((((((.((((((....)))))))))))..)))....))))).)))))....)))..((((.....)))).... (-34.18 = -35.18 +   1.00)

alignment

secondary structure

dotplot

Window 5

Location	16,521,256 – 16,521,363
Length	107
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	84.80
Mean single sequence MFE	-44.38
Consensus MFE	-36.05
Energy contribution	-38.08
Covariance contribution	2.03
Combinations/Pair	1.11
Mean z-score	-2.26
Structure conservation index	0.81
SVM decision value	0.69
SVM RNA-class probability	0.822787
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16521256 107 + 27905053
AAGGCCCAGGACUCGGCUCAAGUUGAGCCUUUCUGCCAGUGGCAGCUCGCACGAAAGUUGCCGGAUCCUUUCCGUUUUGUUCUGCUCUUGACACGGGGCCAGGGUCA
..(((((.((.((((((((.....)))))....((.(((.(((((..(((((....).)))((((.....))))....)..))))).))).)).))).)).))))). ( -42.60)
>DroPse_CAF1 76552 84 + 1
AAGGCGAGGUACU-------------GCC--ACUGCCACGGGCAGCUCUCACGAAAGUUCC--------UCUUGUUCCGUUCUGCUCUUGACACAGGGCCAGGGCCA
..(((((((..((-------------(((--.(......)))))).....((....)).))--------)).........((((((((......)))).))))))). ( -26.30)
>DroSec_CAF1 76945 107 + 1
AAGGCCCAGGACUCGGCUCAAGUUGGGCCUGGCUGCCAGGGGCAGCUCGCACCAAAGUUGCCGGAUCCUUUCCGUUUCGUUCUGCUCUUGACACGGGGCCAGGGUCA
..(((((((((..((((.....((((((..(((((((...))))))).)).))))....))))..))))....((..(((((.......)).)))..))..))))). ( -49.90)
>DroSim_CAF1 81578 107 + 1
AAGGCCCAGGACUCGGCUCAAGUUGAGCCUGGCUGCCAGGGGCAGCUCGCACGAAAGUUGCCGGAUCCUUUCCGUUUCGUUCUGCUCUUGACACGGGGCCAGGGUCA
..((((((((.((((((....)))))))))((((.((((((((((..(((((....).)))((((.....))))....)..)))))))))....).)))).))))). ( -50.40)
>DroEre_CAF1 79230 107 + 1
AAGGCCCAGGACUCGGUUCAAGCUGAGCCUGGAUGCCAGGGGCAGCUCGCACGAAAGUUGCCGGAUCCUUUCCGUUUCGUUCUGCUCUUGACAUGGGGCCAGGGUCA
..((((((((.((((((....)))))))))..(((.(((((((((..(((((....).)))((((.....))))....)..))))))))).))).)))))....... ( -48.90)
>DroYak_CAF1 73801 107 + 1
AAGGCCCAGGACUCGGUUCAAGCUGAGCCUAACUGCCAGGAGCAGCUCGCACGAAAGUUGCCGGAUCCUUUCCGUUUCGUUCUGCUCUUGACACGGGGCCAGGGUCA
..((((((((.((((((....)))))))))...((.(((((((((..(((((....).)))((((.....))))....)..))))))))).))..)))))....... ( -48.20)
>consensus
AAGGCCCAGGACUCGGCUCAAGUUGAGCCUGGCUGCCAGGGGCAGCUCGCACGAAAGUUGCCGGAUCCUUUCCGUUUCGUUCUGCUCUUGACACGGGGCCAGGGUCA
..(((((.((.((((((((.....)))))....((.(((((((((..(((((....).)))((((.....))))....)..))))))))).)).))).)).))))). (-36.05 = -38.08 +   2.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:42 2006