Locus 6295

Sequence ID	2R_DroMel_CAF1
Location	19,746,723 – 19,746,843
Length	120
Max. P	0.999460

overview

Window 2

Location	19,746,723 – 19,746,843
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.67
Mean single sequence MFE	-33.86
Consensus MFE	-33.86
Energy contribution	-33.30
Covariance contribution	-0.56
Combinations/Pair	1.08
Mean z-score	-1.57
Structure conservation index	1.00
SVM decision value	2.31
SVM RNA-class probability	0.992115
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19746723 120 + 20766785
GUGUUGGCGAUGCGAAGAGAUUUUCCGCUGCAAUUUCCACUGGAAUGAAUUGCUUGCCAAUAAUCCGCUGCGACAGUUGGCAAAAAUGCAAUUAAAAAAUUUCCACUUUGUCGCUGGCAG
.(((..(((..((((((.....(((((.((.......)).)))))..((((((((((((((..((......))..))))))))....))))))............)))))))))..))). ( -34.20)
>DroPse_CAF1 7713 120 + 1
GUGUUGGCGGGACGUAAAGAUUUUCCGCUGCAAUUUCCAACGGAAUGAAUUGCUUGCCAAUAAUCCGCUGCGACAGUUGGCAAAAAUGCAAUUAAAAAAUUUUCACUUUGUCGCUGGCAA
.(((..((((.(.((.(((((((((((.((.......)).))))...((((((((((((((..((......))..))))))))....))))))...))))))).))..).))))..))). ( -33.60)
>DroSim_CAF1 2040 120 + 1
GUGUUGGCGAUGCGAAGAGAUUUUCCGCUGCAAUUUCCACUGGAAUGAAUUGCUUGCCAAUAAUCCGCUGCGACAGUUGGCAAAAAUGCAAUUAAAAAAUUUCCACUUUGUCGCUGGCAG
.(((..(((..((((((.....(((((.((.......)).)))))..((((((((((((((..((......))..))))))))....))))))............)))))))))..))). ( -34.20)
>DroYak_CAF1 2018 120 + 1
GUGUUGGCGAUGCGAAGAGAUUUUCCGCUGCAAUUUCCACUGGAAUGAAUUGCUUGCCAAUAAUCCGCUGCGACAGUUGGCAAAAAUGCAAUUAAAAAAUUUCCACUUUGUCGCUGGCAG
.(((..(((..((((((.....(((((.((.......)).)))))..((((((((((((((..((......))..))))))))....))))))............)))))))))..))). ( -34.20)
>DroPer_CAF1 7685 120 + 1
GUGUUGGCGGGACGAAAAGAUUUUCCGCUGCAAUUUCCAACGGAAUGAAUUGCUUGCCAAUAAUCCGCUGCGACAGUUGGCAAAAAUGCAAUUAAAAAAUUUUCACUUUGUCGCUGGCAA
.(((..((..((((((..((..(((((.((.......)).)))))..((((((((((((((..((......))..))))))))....)))))).........))..))))))))..))). ( -33.10)
>consensus
GUGUUGGCGAUGCGAAGAGAUUUUCCGCUGCAAUUUCCACUGGAAUGAAUUGCUUGCCAAUAAUCCGCUGCGACAGUUGGCAAAAAUGCAAUUAAAAAAUUUCCACUUUGUCGCUGGCAG
.(((..(((((.....(((((((((((.((.......)).))))...((((((((((((((..((......))..))))))))....))))))...)))))))......)))))..))). (-33.86 = -33.30 +  -0.56)

alignment

secondary structure

dotplot

Window 3

Location	19,746,723 – 19,746,843
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.67
Mean single sequence MFE	-33.46
Consensus MFE	-32.50
Energy contribution	-31.98
Covariance contribution	-0.52
Combinations/Pair	1.09
Mean z-score	-2.05
Structure conservation index	0.97
SVM decision value	3.62
SVM RNA-class probability	0.999460
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19746723 120 - 20766785
CUGCCAGCGACAAAGUGGAAAUUUUUUAAUUGCAUUUUUGCCAACUGUCGCAGCGGAUUAUUGGCAAGCAAUUCAUUCCAGUGGAAAUUGCAGCGGAAAAUCUCUUCGCAUCGCCAACAC
((((..((((((..(..(((((...........)))))..)....)))))).))))....(((((..((((((...(((...))))))))).(((((.......)))))...)))))... ( -34.90)
>DroPse_CAF1 7713 120 - 1
UUGCCAGCGACAAAGUGAAAAUUUUUUAAUUGCAUUUUUGCCAACUGUCGCAGCGGAUUAUUGGCAAGCAAUUCAUUCCGUUGGAAAUUGCAGCGGAAAAUCUUUACGUCCCGCCAACAC
......(((.....(((((........((((((....(((((((..(((......)))..)))))))))))))..((((((((.......))))))))....)))))....)))...... ( -31.60)
>DroSim_CAF1 2040 120 - 1
CUGCCAGCGACAAAGUGGAAAUUUUUUAAUUGCAUUUUUGCCAACUGUCGCAGCGGAUUAUUGGCAAGCAAUUCAUUCCAGUGGAAAUUGCAGCGGAAAAUCUCUUCGCAUCGCCAACAC
((((..((((((..(..(((((...........)))))..)....)))))).))))....(((((..((((((...(((...))))))))).(((((.......)))))...)))))... ( -34.90)
>DroYak_CAF1 2018 120 - 1
CUGCCAGCGACAAAGUGGAAAUUUUUUAAUUGCAUUUUUGCCAACUGUCGCAGCGGAUUAUUGGCAAGCAAUUCAUUCCAGUGGAAAUUGCAGCGGAAAAUCUCUUCGCAUCGCCAACAC
((((..((((((..(..(((((...........)))))..)....)))))).))))....(((((..((((((...(((...))))))))).(((((.......)))))...)))))... ( -34.90)
>DroPer_CAF1 7685 120 - 1
UUGCCAGCGACAAAGUGAAAAUUUUUUAAUUGCAUUUUUGCCAACUGUCGCAGCGGAUUAUUGGCAAGCAAUUCAUUCCGUUGGAAAUUGCAGCGGAAAAUCUUUUCGUCCCGCCAACAC
..((..((((.((((............((((((....(((((((..(((......)))..)))))))))))))..((((((((.......))))))))...))))))))...))...... ( -31.00)
>consensus
CUGCCAGCGACAAAGUGGAAAUUUUUUAAUUGCAUUUUUGCCAACUGUCGCAGCGGAUUAUUGGCAAGCAAUUCAUUCCAGUGGAAAUUGCAGCGGAAAAUCUCUUCGCAUCGCCAACAC
((((..((((((..(..(((((...........)))))..)....)))))).))))....(((((..((((((...(((...))))))))).(((((.......)))))...)))))... (-32.50 = -31.98 +  -0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:36 2006