Locus 8148

Sequence ID	3R_DroMel_CAF1
Location	21,905,867 – 21,905,969
Length	102
Max. P	0.953550

overview

Window 3

Location	21,905,867 – 21,905,969
Length	102
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	81.67
Mean single sequence MFE	-22.03
Consensus MFE	-17.79
Energy contribution	-18.23
Covariance contribution	0.44
Combinations/Pair	1.06
Mean z-score	-2.16
Structure conservation index	0.81
SVM decision value	1.43
SVM RNA-class probability	0.953550
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21905867 102 + 27905053
AAAAAAACAAAAAAACUAA---ACCUCCCCAUCCCCCAAA--AAACCCGUCGGAUGACGCAGACGCCACAGUCGUUUGUGGGGUUUGUUUUUCUUCAUUUUUUUUUC
(((((((...((((((.((---((((...(((((..(...--......)..))))).(((((((((....).)))))))))))))))))))).....)))))))... ( -23.60)
>DroSec_CAF1 20651 90 + 1
------------AAACAAA---ACCUCCCGAUCCCCCAAA--AAACCCGUCGGAUGACGCAGACGCCACAGUCGUUUGUGGGGUUGGUUUUUCUUAAUUUUUUUUUC
------------.......---.....((((((((.((((--.....((((....))))..(((......))).)))).)))))))).................... ( -22.20)
>DroSim_CAF1 20694 90 + 1
------------AAACAAA---ACCUCCCGAUCCCCCAAA--AAACCCGUCGGAUGACGCAGACGCCACAGUCGUUUGUGGGGUUUGUUUUUUUUAAUUUUUUUUUC
------------.......---.....(((((........--......))))).....((((((.((((((....)))))).))))))................... ( -20.24)
>DroEre_CAF1 21888 85 + 1
------------AAAAAAAACAACCUCCCGAUCCCCCAA---AAACCCGUCGGAUGACGCAGACGCCACAGUCUUUUGCGGGGUUUGCUUUUCUUUCGUU-------
------------......(((......(((((.......---......))))).....((((((.((.(((....))).)).)))))).........)))------- ( -19.22)
>DroYak_CAF1 21215 89 + 1
------------AAAAAAAACAAACUCCCGAUCCCCCAAAAAAAACCCGUCGGAUGACGCAGACGCCACAGUCGUUUGUGGGGUUUGUUUUUCUUCAAUUC------
------------...(((((((((((((((((................)))))....(((((((((....).)))))))))))))))))))).........------ ( -24.89)
>consensus
____________AAACAAA___ACCUCCCGAUCCCCCAAA__AAACCCGUCGGAUGACGCAGACGCCACAGUCGUUUGUGGGGUUUGUUUUUCUUAAUUUUUUUUUC
...........................(((((................))))).....((((((.((((((....)))))).))))))................... (-17.79 = -18.23 +   0.44)

alignment

secondary structure

dotplot

Window 4

Location	21,905,867 – 21,905,969
Length	102
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	81.67
Mean single sequence MFE	-26.70
Consensus MFE	-17.50
Energy contribution	-17.70
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.77
Structure conservation index	0.66
SVM decision value	0.23
SVM RNA-class probability	0.642381
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21905867 102 - 27905053
GAAAAAAAAAUGAAGAAAAACAAACCCCACAAACGACUGUGGCGUCUGCGUCAUCCGACGGGUUU--UUUGGGGGAUGGGGAGGU---UUAGUUUUUUUGUUUUUUU
...(((((((..((((((...((((((((((......)))))..(((.((((..((((.......--.))))..)))).))))))---))..))))))..))))))) ( -31.30)
>DroSec_CAF1 20651 90 - 1
GAAAAAAAAAUUAAGAAAAACCAACCCCACAAACGACUGUGGCGUCUGCGUCAUCCGACGGGUUU--UUUGGGGGAUCGGGAGGU---UUUGUUU------------
..............((((((((.((.(((((......))))).))...((((....)))))))))--)))..((((((....)))---)))....------------ ( -22.70)
>DroSim_CAF1 20694 90 - 1
GAAAAAAAAAUUAAAAAAAACAAACCCCACAAACGACUGUGGCGUCUGCGUCAUCCGACGGGUUU--UUUGGGGGAUCGGGAGGU---UUUGUUU------------
.................(((((((((((.((((.((((((((((....))))))......)))).--))))))))(((....)))---)))))))------------ ( -24.20)
>DroEre_CAF1 21888 85 - 1
-------AACGAAAGAAAAGCAAACCCCGCAAAAGACUGUGGCGUCUGCGUCAUCCGACGGGUUU---UUGGGGGAUCGGGAGGUUGUUUUUUUU------------
-------.....((((((((((..((((.((((((.((((((((....)))).....)))).)))---)))))))(((....)))))))))))))------------ ( -26.90)
>DroYak_CAF1 21215 89 - 1
------GAAUUGAAGAAAAACAAACCCCACAAACGACUGUGGCGUCUGCGUCAUCCGACGGGUUUUUUUUGGGGGAUCGGGAGUUUGUUUUUUUU------------
------......((((((((((((((((...........(((((....)))))(((..((((.....))))..)))..))).)))))))))))))------------ ( -28.40)
>consensus
GAAAAAAAAAUGAAGAAAAACAAACCCCACAAACGACUGUGGCGUCUGCGUCAUCCGACGGGUUU__UUUGGGGGAUCGGGAGGU___UUUGUUU____________
........................((((.((((.((((((((((....))))))......))))...))))))))................................ (-17.50 = -17.70 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:40 2006