Locus 8176

Sequence ID	X_DroMel_CAF1
Location	20,340,295 – 20,340,414
Length	119
Max. P	0.946977

overview

Window 1

Location	20,340,295 – 20,340,414
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.82
Mean single sequence MFE	-26.70
Consensus MFE	-24.00
Energy contribution	-23.84
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-1.73
Structure conservation index	0.90
SVM decision value	1.37
SVM RNA-class probability	0.946977
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20340295 119 + 22224390
GAAGUCCAGUCGAGCAAAGACAAAUUCAUGUUGCAUUCGUAGCUUAAGGAUAUUAUUGUAUCCU-UAGCAUCCUUUGUGCCCGGAGCUCCUUUUUGUUUCACUUUUUGCAUACUUUAUUU
.............(((((((((((.....(((((....)))))((((((((((....)))))))-))).....)))))....(((((........)))))...))))))........... ( -25.70)
>DroSec_CAF1 8177 119 + 1
GAAGUCCAGUCGCGCAAAGACAAAUUCAUGUUGCAUUCGUAGCUUAAGGAUAUUAUUGUAUCCU-UUGCUUCCUUUGUGCCCGGAGCUCCUUUUUGUUUCACUUUUUGCAUACUUUAUUU
(((((......((((((((..........(((((....)))))..((((((((....)))))))-)......))))))))..(((((........)))))...........))))).... ( -28.60)
>DroSim_CAF1 9716 119 + 1
GAAGUCCAGUCGAGCAAAGACAAAUUCAUGUUGCAUUCGUAGCUUAAGGAUAUUAUUGUAUCCU-UUGCAUCCUUUGUGCCCGGAGCUCCUUUUUGUUUCACUUUUUGCAUACUUUAUUU
.............(((((((............((((.....((..((((((((....)))))))-).)).......))))..(((((........)))))..)))))))........... ( -24.00)
>DroEre_CAF1 4585 120 + 1
GAAGUCCAGUCGAGCAAAGACAAAUUCAUGUUGCACUCGAAGCUUAAGGAUAUUAUUGUAUCCUUUUGCAUCCUUUGUGCCCGGAGCUCCUUUUUGUUUCACUUUUUGCAUACUUUAUUU
.............(((((((............((((..((.((..((((((((....))))))))..)).))....))))..(((((........)))))..)))))))........... ( -29.20)
>DroYak_CAF1 8542 119 + 1
GAAGUCCAGUCGAGCAAAGACAAAUUCAUGUUGCAUUCGAAGCUUAAGGAUAUUAUUGUAUCCU-UUGCAUCCUUUGUGCCCGGAGCUCCUUUUUGUUUCACUUUUUGCAUACUUUAUUU
.............(((((((............((((..((.((..((((((((....)))))))-).)).))....))))..(((((........)))))..)))))))........... ( -26.00)
>consensus
GAAGUCCAGUCGAGCAAAGACAAAUUCAUGUUGCAUUCGUAGCUUAAGGAUAUUAUUGUAUCCU_UUGCAUCCUUUGUGCCCGGAGCUCCUUUUUGUUUCACUUUUUGCAUACUUUAUUU
.............(((((((............((((.....((...(((((((....)))))))...)).......))))..(((((........)))))..)))))))........... (-24.00 = -23.84 +  -0.16)

alignment

secondary structure

dotplot

Window 2

Location	20,340,295 – 20,340,414
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.82
Mean single sequence MFE	-24.64
Consensus MFE	-22.20
Energy contribution	-22.04
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-1.35
Structure conservation index	0.90
SVM decision value	0.29
SVM RNA-class probability	0.669239
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20340295 119 - 22224390
AAAUAAAGUAUGCAAAAAGUGAAACAAAAAGGAGCUCCGGGCACAAAGGAUGCUA-AGGAUACAAUAAUAUCCUUAAGCUACGAAUGCAACAUGAAUUUGUCUUUGCUCGACUGGACUUC
..............................((((.(((((...(((((...((((-((((((......))))))).))).((((((.(.....).))))))))))).....))))))))) ( -25.10)
>DroSec_CAF1 8177 119 - 1
AAAUAAAGUAUGCAAAAAGUGAAACAAAAAGGAGCUCCGGGCACAAAGGAAGCAA-AGGAUACAAUAAUAUCCUUAAGCUACGAAUGCAACAUGAAUUUGUCUUUGCGCGACUGGACUUC
..............................((((.(((((((.(((((..(((.(-((((((......)))))))..)))((((((.(.....).))))))))))).))..))))))))) ( -26.90)
>DroSim_CAF1 9716 119 - 1
AAAUAAAGUAUGCAAAAAGUGAAACAAAAAGGAGCUCCGGGCACAAAGGAUGCAA-AGGAUACAAUAAUAUCCUUAAGCUACGAAUGCAACAUGAAUUUGUCUUUGCUCGACUGGACUUC
..............................((((.(((((...(((((...((.(-((((((......)))))))..)).((((((.(.....).))))))))))).....))))))))) ( -22.30)
>DroEre_CAF1 4585 120 - 1
AAAUAAAGUAUGCAAAAAGUGAAACAAAAAGGAGCUCCGGGCACAAAGGAUGCAAAAGGAUACAAUAAUAUCCUUAAGCUUCGAGUGCAACAUGAAUUUGUCUUUGCUCGACUGGACUUC
..............................((((.(((((...........((..(((((((......)))))))..)).(((((((..(((......)))...)))))))))))))))) ( -26.30)
>DroYak_CAF1 8542 119 - 1
AAAUAAAGUAUGCAAAAAGUGAAACAAAAAGGAGCUCCGGGCACAAAGGAUGCAA-AGGAUACAAUAAUAUCCUUAAGCUUCGAAUGCAACAUGAAUUUGUCUUUGCUCGACUGGACUUC
..............................((((.((((((((.......))).(-((((((......))))))).....((((..((((((......)))...)))))))))))))))) ( -22.60)
>consensus
AAAUAAAGUAUGCAAAAAGUGAAACAAAAAGGAGCUCCGGGCACAAAGGAUGCAA_AGGAUACAAUAAUAUCCUUAAGCUACGAAUGCAACAUGAAUUUGUCUUUGCUCGACUGGACUUC
..............................((((.(((((...((((((..((...((((((......))))))...))..(((((.(.....).))))))))))).....))))))))) (-22.20 = -22.04 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:36 2006