Locus 4899

Sequence ID	2R_DroMel_CAF1
Location	16,009,706 – 16,009,813
Length	107
Max. P	0.826062

overview

Window 1

Location	16,009,706 – 16,009,813
Length	107
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	94.13
Mean single sequence MFE	-26.17
Consensus MFE	-21.60
Energy contribution	-21.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.22
Structure conservation index	0.83
SVM decision value	0.57
SVM RNA-class probability	0.786853
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16009706 107 + 20766785
CAACAACAGCAUUUUGUGCUGUUGACACUUUGGAUUCGAGAAUUUAUGCAACUUAAAAGCGGUCAAGUUACGAAUUUAUGCAUGCCAUGCAUUCACUCCACCAGACA
...(((((((((...)))))))))....((((((((((..(((((.(((.........)))...))))).)))))..((((((...))))))........))))).. ( -24.60)
>DroPse_CAF1 72018 100 + 1
CAACAACAGCAUUUUGUGCUGUUGACACUUUGGAUUCGAGAAUUUAUGCAACUUAAAAGCGGUCAAGUUACGAAUUUAUGCAUGCCACGCAUG-------CCACACA
...(((((((((...)))))))))......((((((((..(((((.(((.........)))...))))).)))))))).((((((...)))))-------)...... ( -27.10)
>DroSim_CAF1 65862 99 + 1
CAACAACAGCAUUUUGUGCUGUUGACACUUUGGAUUCGAGAAUUUAUGCAACUUAAAAGCGGUCAAGUUACGAAUUUAUGCAUGCCAUGCAUG--------CAGACA
...(((((((((...)))))))))......((((((((..(((((.(((.........)))...))))).))))))))(((((((...)))))--------)).... ( -29.00)
>DroEre_CAF1 71337 107 + 1
CAACAACAGCAUUUUGUGCUGUUGACACUUUGGAUUCGAGAAUUUAUGCAACUUAAAAGCGGUCAAGUUACGAAUUUAUGCAUGCCAUGCAUUCACUCCACCAGACA
...(((((((((...)))))))))....((((((((((..(((((.(((.........)))...))))).)))))..((((((...))))))........))))).. ( -24.60)
>DroYak_CAF1 74157 107 + 1
CAACAACAGCAUUUUGUGCUGUUGACACUUUGGAUUCGAGAAUUUAUGCAACUUAAAAGCGGUCAAGUUACGAAUUUAUGCAUGCCAUGCAUUCACUCCACCAGACA
...(((((((((...)))))))))....((((((((((..(((((.(((.........)))...))))).)))))..((((((...))))))........))))).. ( -24.60)
>DroPer_CAF1 72493 100 + 1
CAACAACAGCAUUUUGUGCUGUUGACACUUUGGAUUCGAGAAUUUAUGCAACUUAAAAGCGGUCAAGUUACGAAUUUAUGCAUGCCACGCAUG-------CCACACA
...(((((((((...)))))))))......((((((((..(((((.(((.........)))...))))).)))))))).((((((...)))))-------)...... ( -27.10)
>consensus
CAACAACAGCAUUUUGUGCUGUUGACACUUUGGAUUCGAGAAUUUAUGCAACUUAAAAGCGGUCAAGUUACGAAUUUAUGCAUGCCAUGCAUG_______CCAGACA
...(((((((((...)))))))))......((((((((..(((((.(((.........)))...))))).))))))))(((.......)))................ (-21.60 = -21.60 +  -0.00)

alignment

secondary structure

dotplot

Window 2

Location	16,009,706 – 16,009,813
Length	107
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	94.13
Mean single sequence MFE	-27.90
Consensus MFE	-23.81
Energy contribution	-23.75
Covariance contribution	-0.06
Combinations/Pair	1.04
Mean z-score	-1.88
Structure conservation index	0.85
SVM decision value	0.70
SVM RNA-class probability	0.826062
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16009706 107 - 20766785
UGUCUGGUGGAGUGAAUGCAUGGCAUGCAUAAAUUCGUAACUUGACCGCUUUUAAGUUGCAUAAAUUCUCGAAUCCAAAGUGUCAACAGCACAAAAUGCUGUUGUUG
....(((..((((..((((((...))))))..))))(((((((((......)))))))))..............)))......((((((((.....))))))))... ( -28.70)
>DroPse_CAF1 72018 100 - 1
UGUGUGG-------CAUGCGUGGCAUGCAUAAAUUCGUAACUUGACCGCUUUUAAGUUGCAUAAAUUCUCGAAUCCAAAGUGUCAACAGCACAAAAUGCUGUUGUUG
......(-------(((((...))))))........(((((((((......))))))))).......................((((((((.....))))))))... ( -26.90)
>DroSim_CAF1 65862 99 - 1
UGUCUG--------CAUGCAUGGCAUGCAUAAAUUCGUAACUUGACCGCUUUUAAGUUGCAUAAAUUCUCGAAUCCAAAGUGUCAACAGCACAAAAUGCUGUUGUUG
....((--------(((((...))))))).......(((((((((......))))))))).......................((((((((.....))))))))... ( -27.50)
>DroEre_CAF1 71337 107 - 1
UGUCUGGUGGAGUGAAUGCAUGGCAUGCAUAAAUUCGUAACUUGACCGCUUUUAAGUUGCAUAAAUUCUCGAAUCCAAAGUGUCAACAGCACAAAAUGCUGUUGUUG
....(((..((((..((((((...))))))..))))(((((((((......)))))))))..............)))......((((((((.....))))))))... ( -28.70)
>DroYak_CAF1 74157 107 - 1
UGUCUGGUGGAGUGAAUGCAUGGCAUGCAUAAAUUCGUAACUUGACCGCUUUUAAGUUGCAUAAAUUCUCGAAUCCAAAGUGUCAACAGCACAAAAUGCUGUUGUUG
....(((..((((..((((((...))))))..))))(((((((((......)))))))))..............)))......((((((((.....))))))))... ( -28.70)
>DroPer_CAF1 72493 100 - 1
UGUGUGG-------CAUGCGUGGCAUGCAUAAAUUCGUAACUUGACCGCUUUUAAGUUGCAUAAAUUCUCGAAUCCAAAGUGUCAACAGCACAAAAUGCUGUUGUUG
......(-------(((((...))))))........(((((((((......))))))))).......................((((((((.....))))))))... ( -26.90)
>consensus
UGUCUGG_______AAUGCAUGGCAUGCAUAAAUUCGUAACUUGACCGCUUUUAAGUUGCAUAAAUUCUCGAAUCCAAAGUGUCAACAGCACAAAAUGCUGUUGUUG
....(((........((((((...))))))......(((((((((......)))))))))..............)))......((((((((.....))))))))... (-23.81 = -23.75 +  -0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:45 2006