Locus 1086

Sequence ID	2L_DroMel_CAF1
Location	2,993,672 – 2,993,792
Length	120
Max. P	0.550218

overview

Window 1

Location	2,993,672 – 2,993,792
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	95.69
Mean single sequence MFE	-46.48
Consensus MFE	-44.58
Energy contribution	-45.20
Covariance contribution	0.62
Combinations/Pair	1.06
Mean z-score	-1.38
Structure conservation index	0.96
SVM decision value	-0.00
SVM RNA-class probability	0.531071
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2993672 120 + 22407834
AGUUAUCAGCGGACCAGCGCCACUAAAAGCCACCGAAUCGCACACACACCGCACCGACAACGAUGUGGCUGCGCCAGAGCAGCGGUGGAGGCGUUGCCUCCGUCGGACACGUCGGCCCAC
.(((....(((((.(((((((........(((((...............((((.((....)).))))(((((......)))))))))).)))))))..)))))..)))............ ( -41.60)
>DroSec_CAF1 5427 120 + 1
AGUUAUCAGCGGACCAGCGCCACUAAAAGCCACCGAAUCGCACACACACCGCAUCGACAACGAUGUGGCUGCGCCAGAGCAGCGGUGGAGGCGUUGCCUCCGCCGGACACGGCGUCCCAC
........(.(((((((((((........(((((...............(((((((....)))))))(((((......)))))))))).))))))).....((((....))))))))).. ( -51.20)
>DroSim_CAF1 5409 120 + 1
AGUUAUCAGCGGACCAGCGCCACUAAAAGCCACCGAAUCGCACACACACCGUAUCGACAACGAUGUGGCUGCGCCAGAGCAGCGGUGGAGGCGUUGCCUCCGCCGGACACGGCGGCCCAC
..........((..(((((((........(((((..........((((.(((.......))).))))(((((......)))))))))).)))))))...((((((....)))))).)).. ( -49.00)
>DroYak_CAF1 5443 120 + 1
AGUUAUCAGCGGACCAGCGCCACUAAGAGCCACCGAAUCGCACACAUACCGCACCGAAAACGAUGUGGCUGCGCCAGAGCAGCGGUGGAGGCGUUGCCUCUGCCGGACACGGCGGCCCCC
..........((..(((((((........(((((...............((((.((....)).))))(((((......)))))))))).))))))))).((((((....))))))..... ( -44.10)
>consensus
AGUUAUCAGCGGACCAGCGCCACUAAAAGCCACCGAAUCGCACACACACCGCACCGACAACGAUGUGGCUGCGCCAGAGCAGCGGUGGAGGCGUUGCCUCCGCCGGACACGGCGGCCCAC
..........((..(((((((........(((((...............(((((((....)))))))(((((......)))))))))).)))))))...((((((....)))))).)).. (-44.58 = -45.20 +   0.62)

alignment

secondary structure

dotplot

Window 2

Location	2,993,672 – 2,993,792
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	95.69
Mean single sequence MFE	-55.60
Consensus MFE	-51.66
Energy contribution	-52.72
Covariance contribution	1.06
Combinations/Pair	1.03
Mean z-score	-1.45
Structure conservation index	0.93
SVM decision value	0.03
SVM RNA-class probability	0.550218
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2993672 120 - 22407834
GUGGGCCGACGUGUCCGACGGAGGCAACGCCUCCACCGCUGCUCUGGCGCAGCCACAUCGUUGUCGGUGCGGUGUGUGUGCGAUUCGGUGGCUUUUAGUGGCGCUGGUCCGCUGAUAACU
((((((((..((((((...((((((...))))))...((..((....((((..((((((((.......))))))))..))))....))..)).....).)))))))))))))........ ( -55.00)
>DroSec_CAF1 5427 120 - 1
GUGGGACGCCGUGUCCGGCGGAGGCAACGCCUCCACCGCUGCUCUGGCGCAGCCACAUCGUUGUCGAUGCGGUGUGUGUGCGAUUCGGUGGCUUUUAGUGGCGCUGGUCCGCUGAUAACU
((((...(((((((((((.((((((...)))))).))((..((....((((..((((((((.......))))))))..))))....))..)).....).))))).)))))))........ ( -54.00)
>DroSim_CAF1 5409 120 - 1
GUGGGCCGCCGUGUCCGGCGGAGGCAACGCCUCCACCGCUGCUCUGGCGCAGCCACAUCGUUGUCGAUACGGUGUGUGUGCGAUUCGGUGGCUUUUAGUGGCGCUGGUCCGCUGAUAACU
((((((((..((((((((.((((((...)))))).))((..((....((((..((((((((.......))))))))..))))....))..)).....).)))))))))))))........ ( -58.40)
>DroYak_CAF1 5443 120 - 1
GGGGGCCGCCGUGUCCGGCAGAGGCAACGCCUCCACCGCUGCUCUGGCGCAGCCACAUCGUUUUCGGUGCGGUAUGUGUGCGAUUCGGUGGCUCUUAGUGGCGCUGGUCCGCUGAUAACU
..(((((((((.((((((..(((((...)))))..)))........((((((((.(((((....))))).)))...)))))))).)))))))))((((((((....).)))))))..... ( -55.00)
>consensus
GUGGGCCGCCGUGUCCGGCGGAGGCAACGCCUCCACCGCUGCUCUGGCGCAGCCACAUCGUUGUCGAUGCGGUGUGUGUGCGAUUCGGUGGCUUUUAGUGGCGCUGGUCCGCUGAUAACU
((((((((..((((((((.((((((...)))))).))((..((....((((..((((((((.......))))))))..))))....))..)).....).)))))))))))))........ (-51.66 = -52.72 +   1.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:13 2006