Locus 7822

Sequence ID	X_DroMel_CAF1
Location	19,483,925 – 19,484,085
Length	160
Max. P	0.965585

overview

Window 1

Location	19,483,925 – 19,484,045
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.83
Mean single sequence MFE	-41.32
Consensus MFE	-39.98
Energy contribution	-39.26
Covariance contribution	-0.72
Combinations/Pair	1.11
Mean z-score	-1.10
Structure conservation index	0.97
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19483925 120 + 22224390
UAUCGUGUUCUAGUCGAAUAUAUGCCUCCGUGGAGAGGCUGGCAGGCGAGCUAGCGGAGGCAGGAUAUGGCAGCUUCACGAUCCUGGGCGCAAUCGUGUGGAUGAGCUUGGGAAUGUAGU
..(((((..((.((((.((...(((((((((.....((((.(....).)))).)))))))))..)).))))))...)))))(((..(((...(((.....)))..)))..)))....... ( -48.20)
>DroSec_CAF1 5910 120 + 1
UAUCGUAUUCUAGUCGAAUAUAGGCCUCCGUGGAGAGGCUGGCAGGCGAGCUAGUGGAGGCAGGAUAUGGCAGCUUCACGAUCCUGGGCGCAAUCGUGUGGAUGAGCUUGGGAAUGUAGU
..(((((((((...(.......)((((((........((((((......)))))))))))))))))))))..(((..(((.(((..(((...(((.....)))..)))..))).)))))) ( -39.60)
>DroSim_CAF1 6860 120 + 1
UAUCGUAUUCUAGUCGAAUAUAGGCCUCCGUGGAGAGGCUGGCAGGCGAGCUAGUGGAGGCAGGAUAUGGCAGCUUCACGAUCCUGGGCGCAAUCGUGUGGAUGAGCUUGGGAAUGUAGU
..(((((((((...(.......)((((((........((((((......)))))))))))))))))))))..(((..(((.(((..(((...(((.....)))..)))..))).)))))) ( -39.60)
>DroEre_CAF1 5591 120 + 1
UAUCGUAUUCUAAUCGGAUAUAGGCCUCCGUGGAGAGGCUGGCAGGCGAGCUAGUGGAGGCAGGAUAUGGCAGCUUCACGAUCCUGGGUGCAAUCGUGUGGAUGAGCUUGGGAAUGUAGU
..((((..((((..((((........))))))))(((((((.((..(..(((......)))..)...)).)))))))))))(((..(((...(((.....)))..)))..)))....... ( -38.80)
>DroYak_CAF1 5146 120 + 1
UAUCGUAUUCUAGUCGGAUAUAGGCCUCCGUGGAGAGGCUGGCAGGCGAGCUAGUGGAGGCAGGAUAUGGCAGCUUCACGAUCCUGGGCGCAAUCGUGUGGAUGAGCUUGGGAAUGUAGU
..((((..((((..((((........))))))))(((((((.((..(..(((......)))..)...)).)))))))))))(((..(((...(((.....)))..)))..)))....... ( -40.40)
>consensus
UAUCGUAUUCUAGUCGAAUAUAGGCCUCCGUGGAGAGGCUGGCAGGCGAGCUAGUGGAGGCAGGAUAUGGCAGCUUCACGAUCCUGGGCGCAAUCGUGUGGAUGAGCUUGGGAAUGUAGU
((((((((((.....))))))..((((((........((((((......))))))))))))..)))).....(((..(((.(((..(((...(((.....)))..)))..))).)))))) (-39.98 = -39.26 +  -0.72)

alignment

secondary structure

dotplot

Window 2

Location	19,483,965 – 19,484,085
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.67
Mean single sequence MFE	-42.48
Consensus MFE	-41.86
Energy contribution	-41.22
Covariance contribution	-0.64
Combinations/Pair	1.11
Mean z-score	-1.51
Structure conservation index	0.99
SVM decision value	1.58
SVM RNA-class probability	0.965585
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19483965 120 + 22224390
GGCAGGCGAGCUAGCGGAGGCAGGAUAUGGCAGCUUCACGAUCCUGGGCGCAAUCGUGUGGAUGAGCUUGGGAAUGUAGUUGACCAUGGCGAAGUCUUUGGAGGAGGGCUCAUGCUUAAG
((((...(((((..(((((((....((((((((((..(((.(((..(((...(((.....)))..)))..))).)))))))).))))).....)))))))......))))).)))).... ( -43.70)
>DroSec_CAF1 5950 120 + 1
GGCAGGCGAGCUAGUGGAGGCAGGAUAUGGCAGCUUCACGAUCCUGGGCGCAAUCGUGUGGAUGAGCUUGGGAAUGUAGUUGACCAUGGCGAAGUCUUUAGAGGAGGGCUCAUGCUUAAG
((((...(((((..(((((((....((((((((((..(((.(((..(((...(((.....)))..)))..))).)))))))).))))).....)))))))......))))).)))).... ( -42.60)
>DroSim_CAF1 6900 120 + 1
GGCAGGCGAGCUAGUGGAGGCAGGAUAUGGCAGCUUCACGAUCCUGGGCGCAAUCGUGUGGAUGAGCUUGGGAAUGUAGUUGACCAUGGCGAAGUCUUUGGAGCAGGGCUCAUGCUUAAG
((((...(((((.((.(((((....((((((((((..(((.(((..(((...(((.....)))..)))..))).)))))))).))))).....)))))....))..))))).)))).... ( -42.20)
>DroEre_CAF1 5631 120 + 1
GGCAGGCGAGCUAGUGGAGGCAGGAUAUGGCAGCUUCACGAUCCUGGGUGCAAUCGUGUGGAUGAGCUUGGGAAUGUAGUUGACCAUGGCGAAGUCUUUGGAGCAGGGCUCAUGUUUGAG
..((((((((((.((.(((((....((((((((((..(((.(((..(((...(((.....)))..)))..))).)))))))).))))).....)))))....))..)))))..))))).. ( -39.90)
>DroYak_CAF1 5186 120 + 1
GGCAGGCGAGCUAGUGGAGGCAGGAUAUGGCAGCUUCACGAUCCUGGGCGCAAUCGUGUGGAUGAGCUUGGGAAUGUAGUUGACCAUGGCGAAGUCUUUGGAGCAGGGCUCAUGCUUGAG
..((((((((((.((.(((((....((((((((((..(((.(((..(((...(((.....)))..)))..))).)))))))).))))).....)))))....))..)))))..))))).. ( -44.00)
>consensus
GGCAGGCGAGCUAGUGGAGGCAGGAUAUGGCAGCUUCACGAUCCUGGGCGCAAUCGUGUGGAUGAGCUUGGGAAUGUAGUUGACCAUGGCGAAGUCUUUGGAGCAGGGCUCAUGCUUAAG
((((...(((((..(((((((....((((((((((..(((.(((..(((...(((.....)))..)))..))).)))))))).))))).....)))))))......))))).)))).... (-41.86 = -41.22 +  -0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:22 2006