Locus 975

Sequence ID	3R_DroMel_CAF1
Location	3,159,733 – 3,159,973
Length	240
Max. P	0.505996

overview

Window 7

Location	3,159,733 – 3,159,853
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	90.69
Mean single sequence MFE	-24.00
Consensus MFE	-18.77
Energy contribution	-19.03
Covariance contribution	0.25
Combinations/Pair	1.12
Mean z-score	-1.44
Structure conservation index	0.78
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3159733 120 + 27905053
GCGUGUCCUUUAAACUUUUAAAGCUUAAGCAUGCGUGGGAAUAAUUAAAAUGUUAAUGCCCCGUACUCAAGGCUUAACCUCAUUUAUAGAAAGUCACCUCAGUAAGUCCUACGUACUUAU
((.((..((((((....))))))..)).)).(((((((((...........(((((.(((..........))))))))....(((((.((........)).))))))))))))))..... ( -24.50)
>DroSec_CAF1 7607 120 + 1
GCGUAUACUUUAAACUCUUAAAGCUUAAGCGUGCAUAGGAUUAAUUAAAAUGUUAAUGCCACGUACUCAGGGCUUAACCUCAUUUAUAGAAAGUCACCUCAGUAAAUCCUACGUACUUAU
((.((..((((((....))))))..)).))((((.(((((((.(((.....(((((.(((.(.......)))))))))..........((........))))).))))))).)))).... ( -25.00)
>DroSim_CAF1 9791 120 + 1
GCGUAUCCUUUAAACUCUUAAAGCUUAAGCGUGCAUAGGAUUAAUUAAAAUGUUAAUGCCACGUACUCAGGGCUUAACCUCAUUUAUAGAAAGUCACCUCAGUAAAUCCUACGUACUUAU
((.((..((((((....))))))..)).))((((.(((((((.(((.....(((((.(((.(.......)))))))))..........((........))))).))))))).)))).... ( -25.00)
>DroYak_CAF1 9153 120 + 1
GCGUAUCCUUUUAACUCUUAAAGCUUAAGCGUGCAUGCGAAUAAUUAAAAUGUUAAUGCUCUGUACUCUACGCUUAACCUCAUUUAUAGGAAGUGCCCCCAGUUAAUCCUACGUACUUAU
(((((.....((((((......(((((((((((..((((....(((((....)))))....))))...)))))))..(((.......)))))))......))))))...)))))...... ( -21.50)
>consensus
GCGUAUCCUUUAAACUCUUAAAGCUUAAGCGUGCAUAGGAAUAAUUAAAAUGUUAAUGCCACGUACUCAAGGCUUAACCUCAUUUAUAGAAAGUCACCUCAGUAAAUCCUACGUACUUAU
((.((..((((((....))))))..)).))((((.(((((...........(((((.(((..........))))))))....(((((.((........)).)))))))))).)))).... (-18.77 = -19.03 +   0.25)

alignment

secondary structure

dotplot

Window 8

Location	3,159,853 – 3,159,973
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	94.09
Mean single sequence MFE	-23.42
Consensus MFE	-22.17
Energy contribution	-22.55
Covariance contribution	0.37
Combinations/Pair	1.06
Mean z-score	-1.30
Structure conservation index	0.95
SVM decision value	-0.05
SVM RNA-class probability	0.505996
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3159853 120 + 27905053
UUUAAUUUAUUUUCCGCUGGCCUCAAAAAUGUUCUCCCUCCUCCAUGUUCCUCAUAAUUUAUGAGGCAUAUGUUACCAUGCAAAAGUUACUAUGACAUAAGGUGGAUGUAAUCUGAAUAA
((((..((((..((((((.((((((.((((..........................)))).)))))).(((((((....((....)).....))))))).)))))).))))..))))... ( -24.77)
>DroSec_CAF1 7727 117 + 1
UUUAAUUUAUUUUCCGCUGGCCUCAAAAAUGCUCUCCC---UCCAUUUUCCUUAUAAUUUAUGAGGCAUAUGUUGCCUGGCAAAAGUUACUAUGACACAAGGUGGAUGUAAUCUGAAUAA
((((..((((..((((((.(((...((((((.......---..))))))..............(((((.....))))))))....(((.....)))....)))))).))))..))))... ( -22.70)
>DroSim_CAF1 9911 117 + 1
UUUAAUUUAUUUUCCGCUGGCCUCAAAAAUGCUCUCCC---UCCAUUUUCCUUAUAAUUUAUGAGGCAUAUGUUACCUGGCAAAAGUUACUAUGACACAAGGUGGAUGUAAUCUGAAUAA
((((..((((..((((((.((((((.((((........---...............)))).))))))...(((((..((((....))))...)))))...)))))).))))..))))... ( -23.60)
>DroYak_CAF1 9273 117 + 1
UUUAAUUUAUUUUCCACUGGCCUCAAAAAUGUUCUCCC---UCCCUGUUCCUUAUAAUUUAUGAGGCAUAUGUUACCAGGCAAAAGUUACUAUGACACUAGGUGGAUGUAAUCUGAAUAA
((((..((((..((((((.((((((.((((........---...............)))).))))))...(((((..((..........)).)))))...)))))).))))..))))... ( -22.60)
>consensus
UUUAAUUUAUUUUCCGCUGGCCUCAAAAAUGCUCUCCC___UCCAUGUUCCUUAUAAUUUAUGAGGCAUAUGUUACCAGGCAAAAGUUACUAUGACACAAGGUGGAUGUAAUCUGAAUAA
((((..((((..((((((.((((((.((((..........................)))).))))))...(((((..((((....))))...)))))...)))))).))))..))))... (-22.17 = -22.55 +   0.37)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:10 2006