Locus 8246

Sequence ID	3R_DroMel_CAF1
Location	22,073,751 – 22,073,901
Length	150
Max. P	0.999883

overview

Window 3

Location	22,073,751 – 22,073,861
Length	110
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	95.02
Mean single sequence MFE	-29.93
Consensus MFE	-28.60
Energy contribution	-29.20
Covariance contribution	0.60
Combinations/Pair	1.06
Mean z-score	-1.49
Structure conservation index	0.96
SVM decision value	1.74
SVM RNA-class probability	0.975091
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22073751 110 + 27905053
CAGUUGGCCAGACGAACAGUGAAUGCAAAACUGUUCGGCGUGCUCCGCCAUUGACAAUGGCAUUGACGCAACCGAAACUCUUCUGUUUUAUUUUCUGUGCUAUU---UUUAGU
....((((((((((((((((.........))))))))((((.(...(((((.....)))))...)))))....(((((......)))))....)))).))))..---...... ( -33.20)
>DroSec_CAF1 65761 112 + 1
CAGUUGGCCAGACGAGCAGUGAAUGCAAAACUGUUCGGCGUGCUCCGCCAUUGACAAUGGCAUUGACGCAACCGAAACUCUUCAGUUUUAUUUUCUGUGCUAUUUU-UUUAGU
....((((((((((((((((.........))))))))((((.(...(((((.....)))))...)))))....((((((....))))))....)))).))))....-...... ( -33.20)
>DroSim_CAF1 59198 112 + 1
CAGUUGGCCAGACGAGCAGUGAAUGCAAAACUGUUCGGCGUGCUCCGCCAUUGACAAUGGCAUUGACGCAACCGAAACUCUUCUGUUUUAUUUUCUGUGCUAUUUU-UUUAGU
....((((((((((((((((.........))))))))((((.(...(((((.....)))))...)))))....(((((......)))))....)))).))))....-...... ( -33.20)
>DroEre_CAF1 60409 113 + 1
CAGUUGGCCAGACGAGCAAUGAAUGCAAAACUGUUCGGCGUGCUCCGCCAUUGACAAUGGCAUUGACGCAACCAAAACUCUUCUGUUUUAUUUUCUGUGCUAUUUUUUUUACU
....((((((((((((((.............))))))((((.(...(((((.....)))))...)))))....(((((......)))))....)))).))))........... ( -27.22)
>DroYak_CAF1 68289 112 + 1
CAGUUCGCCAGACGAACAAUGAAUGCAAAACUGUUCAGCGUGCUCGGCCAUUGACAAUGGCAUUGACGCAACCGAAACUCUUGUCUUUUAUUUUCUGUGCUAUUUU-UUUAGU
(((......((((((....(((((........)))))((((.(...(((((.....)))))...)))))...........))))))........))).((((....-..)))) ( -22.84)
>consensus
CAGUUGGCCAGACGAGCAGUGAAUGCAAAACUGUUCGGCGUGCUCCGCCAUUGACAAUGGCAUUGACGCAACCGAAACUCUUCUGUUUUAUUUUCUGUGCUAUUUU_UUUAGU
....((((((((((((((((.........))))))))((((.(...(((((.....)))))...)))))....(((((......)))))....)))).))))........... (-28.60 = -29.20 +   0.60)

alignment

secondary structure

dotplot

Window 4

Location	22,073,791 – 22,073,901
Length	110
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	96.09
Mean single sequence MFE	-27.30
Consensus MFE	-26.97
Energy contribution	-26.89
Covariance contribution	-0.08
Combinations/Pair	1.10
Mean z-score	-2.32
Structure conservation index	0.99
SVM decision value	4.37
SVM RNA-class probability	0.999883
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22073791 110 + 27905053
UGCUCCGCCAUUGACAAUGGCAUUGACGCAACCGAAACUCUUCUGUUUUAUUUUCUGUGCUAUU---UUUAGUGCAUAACGGAAAUGCCGUUGCUCUACUAAUUCUGCAAUGC
(((.........((((((((((((..((.....(((((......)))))......((..(((..---..)))..))...))..)))))))))).))..........))).... ( -29.01)
>DroSec_CAF1 65801 112 + 1
UGCUCCGCCAUUGACAAUGGCAUUGACGCAACCGAAACUCUUCAGUUUUAUUUUCUGUGCUAUUUU-UUUAGUGCAUAACGGAAAUGCCAUUGCUCUACUAAUUCUGCAAUGC
(((.........((((((((((((..((.....((((((....))))))......((..(((....-..)))..))...))..)))))))))).))..........))).... ( -29.61)
>DroSim_CAF1 59238 112 + 1
UGCUCCGCCAUUGACAAUGGCAUUGACGCAACCGAAACUCUUCUGUUUUAUUUUCUGUGCUAUUUU-UUUAGUGCAUAACGGAAAUGCCGUUGCUCUACUAAUUCUGCAAUGC
(((.........((((((((((((..((.....(((((......)))))......((..(((....-..)))..))...))..)))))))))).))..........))).... ( -29.21)
>DroEre_CAF1 60449 113 + 1
UGCUCCGCCAUUGACAAUGGCAUUGACGCAACCAAAACUCUUCUGUUUUAUUUUCUGUGCUAUUUUUUUUACUACAUAACGGAAAUGCCGUUGCUCUACUAAUUCUGCAAUGC
(((.........((((((((((((..((.....(((((......)))))......((((.((.......)).))))...))..)))))))))).))..........))).... ( -22.81)
>DroYak_CAF1 68329 112 + 1
UGCUCGGCCAUUGACAAUGGCAUUGACGCAACCGAAACUCUUGUCUUUUAUUUUCUGUGCUAUUUU-UUUAGUGCAUAACGGAAAUGCCGUUGCUCUACUAAUUCUGCAAUGC
(((.........((((((((((((..((.....((((..............))))((..(((....-..)))..))...))..)))))))))).))..........))).... ( -25.85)
>consensus
UGCUCCGCCAUUGACAAUGGCAUUGACGCAACCGAAACUCUUCUGUUUUAUUUUCUGUGCUAUUUU_UUUAGUGCAUAACGGAAAUGCCGUUGCUCUACUAAUUCUGCAAUGC
(((.........((((((((((((..((.....(((((......)))))......(((((((.......)))))))...))..)))))))))).))..........))).... (-26.97 = -26.89 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:41 2006