Locus 8281

Sequence ID	3R_DroMel_CAF1
Location	22,144,418 – 22,144,559
Length	141
Max. P	0.999351

overview

Window 5

Location	22,144,418 – 22,144,520
Length	102
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.04
Mean single sequence MFE	-24.66
Consensus MFE	-24.30
Energy contribution	-24.30
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.93
Structure conservation index	0.99
SVM decision value	3.53
SVM RNA-class probability	0.999351
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22144418 102 + 27905053
UA------------------UCUGUGUCCGCUCAAUCUUUGCUCAAUCGCAAUCUUUGGGCAUUGCCAAAACAGGUUAACUAAAAGCAAACGUGUUCUUUACGUUUCUGUUGACUUUUGC
..------------------.........((((((...((((......))))...))))))...........((((((((....((.(((((((.....))))))))))))))))).... ( -24.30)
>DroSec_CAF1 74764 102 + 1
UA------------------UCUGUGUCCGCUCAAUCUUUGCUCAAUCGCAAUCUUUGGGCAUUGCCAAAACAGGUUAACUAAAAGCAAACGUGUUCUUUACGUUUCUGUUGACUUUUGC
..------------------.........((((((...((((......))))...))))))...........((((((((....((.(((((((.....))))))))))))))))).... ( -24.30)
>DroSim_CAF1 69253 102 + 1
UA------------------UCUGUGUCCGCUCAAUCUUUGCUCAAUCGCAAUCUUUGGGCAUUGCCAAAACAGGUUAACUAAAAGCAAACGUGUUCUUUACGUUUCUGUUGACUUUUGC
..------------------.........((((((...((((......))))...))))))...........((((((((....((.(((((((.....))))))))))))))))).... ( -24.30)
>DroEre_CAF1 70031 102 + 1
UA------------------UCUGUGUUCGCUCAAUCUUUGCUCAAUCGCAAUCUUUGGGCAUUGCCAAAACAGGUUAACUAAAAGCAAACGUGUUCUUUACGUUUCUGUUGACUUUUGC
..------------------.((((((..((((((...((((......))))...))))))...))....))))((((((....((.(((((((.....)))))))))))))))...... ( -24.80)
>DroYak_CAF1 67390 120 + 1
UAUCUGUAUCUGUAUUUGUAUCUGUGUCCGCUCAAUCUUUGCUCAAUCGCAAUCUUUGGGCAUUGCCAAAACAGGUUAACUAAAAGCAAACGUGUUCUUUACGUUUCUGUUGACUUUUGC
.........((((.((((.....(((...((((((...((((......))))...))))))..)))))))))))((((((....((.(((((((.....)))))))))))))))...... ( -25.60)
>consensus
UA__________________UCUGUGUCCGCUCAAUCUUUGCUCAAUCGCAAUCUUUGGGCAUUGCCAAAACAGGUUAACUAAAAGCAAACGUGUUCUUUACGUUUCUGUUGACUUUUGC
.............................((((((...((((......))))...))))))...........((((((((....((.(((((((.....))))))))))))))))).... (-24.30 = -24.30 +   0.00)

alignment

secondary structure

dotplot

Window 6

Location	22,144,440 – 22,144,559
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.66
Mean single sequence MFE	-25.65
Consensus MFE	-25.50
Energy contribution	-25.34
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-1.41
Structure conservation index	0.99
SVM decision value	0.99
SVM RNA-class probability	0.895849
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22144440 119 + 27905053
GCUCAAUCGCAAUCUUUGGGCAUUGCCAAAACAGGUUAACUAAAAGCAAACGUGUUCUUUACGUUUCUGUUGACUUUUGCCAGCCGCAAAGCCAAAAGUUAGUCAGCAAAAA-AUAACAA
((((((.........)))))).((((...((((((((.......)))(((((((.....))))))))))))((((((((...((......)))))))))).....))))...-....... ( -25.40)
>DroSec_CAF1 74786 119 + 1
GCUCAAUCGCAAUCUUUGGGCAUUGCCAAAACAGGUUAACUAAAAGCAAACGUGUUCUUUACGUUUCUGUUGACUUUUGCCAGCCGCAAAGCCAAAAGUUAGUCAGCAAAAA-AUAACAA
((((((.........)))))).((((...((((((((.......)))(((((((.....))))))))))))((((((((...((......)))))))))).....))))...-....... ( -25.40)
>DroSim_CAF1 69275 120 + 1
GCUCAAUCGCAAUCUUUGGGCAUUGCCAAAACAGGUUAACUAAAAGCAAACGUGUUCUUUACGUUUCUGUUGACUUUUGCCAGCCGCAAAGCCAAAAGUUAGUCAGCAAAAAAAAAACAA
((((((.........)))))).((((...((((((((.......)))(((((((.....))))))))))))((((((((...((......)))))))))).....))))........... ( -25.40)
>DroEre_CAF1 70053 119 + 1
GCUCAAUCGCAAUCUUUGGGCAUUGCCAAAACAGGUUAACUAAAAGCAAACGUGUUCUUUACGUUUCUGUUGACUUUUGCCAGCCGCAAAGCCAAAAGUUACUCAGCGAAAA-AUAACAA
......((((...((((.(((.((((......((((((((....((.(((((((.....))))))))))))))))).........)))).))).)))).......))))...-....... ( -26.66)
>DroYak_CAF1 67430 119 + 1
GCUCAAUCGCAAUCUUUGGGCAUUGCCAAAACAGGUUAACUAAAAGCAAACGUGUUCUUUACGUUUCUGUUGACUUUUGCCAGCCGCAAAGCCAAAAGUUAGUCAGCAAAAA-AUAACAA
((((((.........)))))).((((...((((((((.......)))(((((((.....))))))))))))((((((((...((......)))))))))).....))))...-....... ( -25.40)
>consensus
GCUCAAUCGCAAUCUUUGGGCAUUGCCAAAACAGGUUAACUAAAAGCAAACGUGUUCUUUACGUUUCUGUUGACUUUUGCCAGCCGCAAAGCCAAAAGUUAGUCAGCAAAAA_AUAACAA
((((((.........)))))).((((...((((((((.......)))(((((((.....))))))))))))((((((((...((......)))))))))).....))))........... (-25.50 = -25.34 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:49 2006