Locus 6069

Sequence ID	3L_DroMel_CAF1
Location	16,146,069 – 16,146,229
Length	160
Max. P	0.727841

overview

Window 8

Location	16,146,069 – 16,146,189
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	97.08
Mean single sequence MFE	-34.80
Consensus MFE	-32.35
Energy contribution	-33.10
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-1.65
Structure conservation index	0.93
SVM decision value	0.19
SVM RNA-class probability	0.626202
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16146069 120 - 23771897
ACCGUAUUUAUCUAGCGGGCAACAGGUCCGGCAAUUGAAAUUCAAUUCAAGUGCCGCCGUGAGUCAUAACUCAUGCGACUCAUGAGUGCGAAUAACAACCACCGUACGAACAGAUAGGGU
(((.(((((.....((((((.....))))((((.(((((......))))).))))))((((((((...........)))))))).(((((............)))))....))))).))) ( -38.10)
>DroSec_CAF1 8090 120 - 1
ACCGUAUUUAUCUAGCGGGCAACAGGUCCGGCAAUUGAAAUUCAAUUCAAGUACCGCCGUGAGUCAUAACUCAUGCGACUCAUGAGUGCGAAUAACAACCCCCGUACGAACAGAUAGGGU
(((.(((((.....((((((.....))))((...(((((......)))))...))))((((((((...........)))))))).(((((............)))))....))))).))) ( -32.70)
>DroSim_CAF1 8838 120 - 1
ACCGUAUUUAUCUAGCGGGCAACAGGUCCGGCAAUUAAAAUUCAAUUCAAGUGCCGCCGUGAGUCAUAACUCAUGCGACUCAUGAGUGCGAAUAACAACCCCCGUACGAACAGAUAGGGU
(((.(((((.....((((((.....))))((((.((.((......)).)).))))))((((((((...........)))))))).(((((............)))))....))))).))) ( -31.90)
>DroEre_CAF1 7663 120 - 1
ACGGUAUUUAUCUAGCGGGCAACAGGUCCGGCAAUUGAAAUUCAAUUCAAGUGCCGCCGUGAGUCAUAACUCAUUCGACUCAUGAGUGCGAAUAACAACCCCCGUUCGACCAGAUAGGGU
..(((..((((...((((((.....))))((((.(((((......))))).))))((((((((((...........)))))))).))))..))))..)))(((..((.....))..))). ( -36.50)
>consensus
ACCGUAUUUAUCUAGCGGGCAACAGGUCCGGCAAUUGAAAUUCAAUUCAAGUGCCGCCGUGAGUCAUAACUCAUGCGACUCAUGAGUGCGAAUAACAACCCCCGUACGAACAGAUAGGGU
......(((((((.((((((.....))))((((.(((((......))))).))))))((((((((...........)))))))).(((((............)))))....))))))).. (-32.35 = -33.10 +   0.75)

alignment

secondary structure

dotplot

Window 9

Location	16,146,109 – 16,146,229
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	97.50
Mean single sequence MFE	-37.17
Consensus MFE	-36.58
Energy contribution	-36.08
Covariance contribution	-0.50
Combinations/Pair	1.08
Mean z-score	-1.54
Structure conservation index	0.98
SVM decision value	0.09
SVM RNA-class probability	0.578231
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16146109 120 + 23771897
AGUCGCAUGAGUUAUGACUCACGGCGGCACUUGAAUUGAAUUUCAAUUGCCGGACCUGUUGCCCGCUAGAUAAAUACGGUGGCCAUAUGCCUAAUGGCCAGCUAAUUAGGGGAGAGAUAU
.(((((.(((((....)))))..))((((.(((((......))))).)))).))).((((.(((.((((.((.....(.(((((((.......))))))).))).)))))))...)))). ( -39.30)
>DroSec_CAF1 8130 120 + 1
AGUCGCAUGAGUUAUGACUCACGGCGGUACUUGAAUUGAAUUUCAAUUGCCGGACCUGUUGCCCGCUAGAUAAAUACGGUGGCCAUAUGCCUAAUGGCCAGCUAAUUAGGGGAGAGAUAU
.(((((.(((((....)))))..))((((.(((((......))))).)))).))).((((.(((.((((.((.....(.(((((((.......))))))).))).)))))))...)))). ( -37.30)
>DroSim_CAF1 8878 120 + 1
AGUCGCAUGAGUUAUGACUCACGGCGGCACUUGAAUUGAAUUUUAAUUGCCGGACCUGUUGCCCGCUAGAUAAAUACGGUGGCCAUAUGCCUAAUGGCCAGCUAAUUAGGGGAGAGAUAU
.(((((.(((((....)))))..))((((.(((((......))))).)))).))).((((.(((.((((.((.....(.(((((((.......))))))).))).)))))))...)))). ( -37.10)
>DroEre_CAF1 7703 120 + 1
AGUCGAAUGAGUUAUGACUCACGGCGGCACUUGAAUUGAAUUUCAAUUGCCGGACCUGUUGCCCGCUAGAUAAAUACCGUGUCCAUAUGCCUAAUGGGCAGCUAAUUAGGGGAGAGAUAU
.((((..(((((....)))))))))((((.(((((......))))).))))...(((((((((((.(((.....................))).)))))))).....))).......... ( -35.00)
>consensus
AGUCGCAUGAGUUAUGACUCACGGCGGCACUUGAAUUGAAUUUCAAUUGCCGGACCUGUUGCCCGCUAGAUAAAUACGGUGGCCAUAUGCCUAAUGGCCAGCUAAUUAGGGGAGAGAUAU
.((((..(((((....)))))))))((((.(((((......))))).)))).....((((.(((.((((.((.....(.(((((((.......))))))).))).)))))))...)))). (-36.58 = -36.08 +  -0.50)

alignment

secondary structure

dotplot

Window 0

Location	16,146,109 – 16,146,229
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	97.50
Mean single sequence MFE	-33.55
Consensus MFE	-30.48
Energy contribution	-31.47
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-1.92
Structure conservation index	0.91
SVM decision value	0.42
SVM RNA-class probability	0.727841
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16146109 120 - 23771897
AUAUCUCUCCCCUAAUUAGCUGGCCAUUAGGCAUAUGGCCACCGUAUUUAUCUAGCGGGCAACAGGUCCGGCAAUUGAAAUUCAAUUCAAGUGCCGCCGUGAGUCAUAACUCAUGCGACU
..................(((((((((.......)))))))((((.........))))))....(((((((((.(((((......))))).))))).(((((((....))))))).)))) ( -37.60)
>DroSec_CAF1 8130 120 - 1
AUAUCUCUCCCCUAAUUAGCUGGCCAUUAGGCAUAUGGCCACCGUAUUUAUCUAGCGGGCAACAGGUCCGGCAAUUGAAAUUCAAUUCAAGUACCGCCGUGAGUCAUAACUCAUGCGACU
..................(.(((((((.......))))))).)((((((......(((((.....)))))(.(((((.....))))))))))))(((.((((((....)))))))))... ( -32.80)
>DroSim_CAF1 8878 120 - 1
AUAUCUCUCCCCUAAUUAGCUGGCCAUUAGGCAUAUGGCCACCGUAUUUAUCUAGCGGGCAACAGGUCCGGCAAUUAAAAUUCAAUUCAAGUGCCGCCGUGAGUCAUAACUCAUGCGACU
............(((((.(((((((....(((.....))).((((.........))))......)).)))))))))).................(((.((((((....)))))))))... ( -31.40)
>DroEre_CAF1 7703 120 - 1
AUAUCUCUCCCCUAAUUAGCUGCCCAUUAGGCAUAUGGACACGGUAUUUAUCUAGCGGGCAACAGGUCCGGCAAUUGAAAUUCAAUUCAAGUGCCGCCGUGAGUCAUAACUCAUUCGACU
....................((((.....))))(((((.((((((...........((((.....))))((((.(((((......))))).))))))))))..)))))............ ( -32.40)
>consensus
AUAUCUCUCCCCUAAUUAGCUGGCCAUUAGGCAUAUGGCCACCGUAUUUAUCUAGCGGGCAACAGGUCCGGCAAUUGAAAUUCAAUUCAAGUGCCGCCGUGAGUCAUAACUCAUGCGACU
........((((((..(((((((((((.......)))))))..))...))..))).))).....(((((((((.(((((......))))).))))).(((((((....))))))).)))) (-30.48 = -31.47 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:05 2006