Locus 6356

Sequence ID	2L_DroMel_CAF1
Location	17,744,420 – 17,744,531
Length	111
Max. P	0.815127

overview

Window 6

Location	17,744,420 – 17,744,513
Length	93
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	83.91
Mean single sequence MFE	-22.78
Consensus MFE	-16.37
Energy contribution	-17.20
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-2.05
Structure conservation index	0.72
SVM decision value	0.16
SVM RNA-class probability	0.611271
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17744420 93 - 22407834
AUUUUCCGCUGCAUUCCGUUGCUAAUUGAGGACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAAUGCAGACACCCAGAGGGCCAG-----------CGAGU
......(((((......(((((((((((....))))))..(((((...((((....))))...)))))))).)).(((...))).)))-----------))... ( -24.50)
>DroVir_CAF1 54625 102 - 1
AUUUUCCACUGCAUUCCGCUGCUAAUUGACGACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAACGCAAG-ACCC-GCACGCAAUUUGCAACGCUCCGAGC
.........((((....(((((((((((....))))))..........((((....)))).......(....)-....-))).))....))))........... ( -21.60)
>DroEre_CAF1 53506 93 - 1
AUUUUCCGCUGCAUUCCGUUGCUAAUUGAGGACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAAUGCAGACACCCAGCAAGCAAU-----------CGAGU
............((((.((((((..(((.((.........(((((...((((....))))...))))).......)))))..))))))-----------.)))) ( -21.49)
>DroYak_CAF1 46601 93 - 1
AUUUUCCGCUGCAUUCCGUUGCUAAUUGAGGACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAAUGCAGACACCAAGCAAGCCAU-----------CGAGU
.......((((((((..(((..((((((....))))))..........((((....)))))))..))))))).)..............-----------..... ( -20.20)
>DroMoj_CAF1 64785 97 - 1
AUUUUCCGCUGCAUUCCGUUGCUAAUUGACGACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAACGCAAG-ACCC-GCACGCAAUUUGCAGCGCUC-----
......(((((((....(((((((((((....))))))..........((((....)))).......(....)-....-....))))).)))))))...----- ( -28.70)
>DroAna_CAF1 53018 92 - 1
AUUUUCCACUGCAUUCCGUUGCUAAUUGAGGACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAAUGCAGACACCCCGCCAGA-AA-----------CGAGA
........(((((((..(((..((((((....))))))..........((((....)))))))..))))))).............-..-----------..... ( -20.20)
>consensus
AUUUUCCGCUGCAUUCCGUUGCUAAUUGAGGACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAAUGCAGACACCCAGCAAGCAAU___________CGAGU
........(((((((..(((..((((((....))))))..........((((....)))))))..)))))))................................ (-16.37 = -17.20 +   0.83)

alignment

secondary structure

dotplot

Window 7

Location	17,744,433 – 17,744,531
Length	98
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	77.84
Mean single sequence MFE	-19.68
Consensus MFE	-15.50
Energy contribution	-16.67
Covariance contribution	1.17
Combinations/Pair	1.00
Mean z-score	-1.23
Structure conservation index	0.79
SVM decision value	0.66
SVM RNA-class probability	0.815127
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17744433 98 - 22407834
--------------CUGGCUCUUGUUGC--U-CAU----AUUUUCCGCUGCAUUCCGUUGCUAAUUGAGGACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAAUGCAGACACCCAG
--------------((((....((....--.-)).----.......((((((((..(((..((((((....))))))..........((((....)))))))..))))))).)..)))) ( -22.10)
>DroEre_CAF1 53519 98 - 1
--------------UCGCCUCUUGCUGC--U-CAU----AUUUUCCGCUGCAUUCCGUUGCUAAUUGAGGACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAAUGCAGACACCCAG
--------------..((.....))...--.-...----.......((((((((..(((..((((((....))))))..........((((....)))))))..))))))).)...... ( -20.30)
>DroWil_CAF1 45293 98 - 1
--------------CUGCCUCCUUCUGU--UUCGUCUCCUUCUUGUACAGCAUUCCGUUGCUAAUUGAUCACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAA-----AUACCCCA
--------------..............--...................(((......)))((((((....))))))..........((((....)))).......-----........ ( -13.60)
>DroYak_CAF1 46614 98 - 1
--------------UUGCGUCUUGCUGC--U-CAU----AUUUUCCGCUGCAUUCCGUUGCUAAUUGAGGACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAAUGCAGACACCAAG
--------------....(((.(((.((--.-...----.......)).)))......(((((((((....))))))..(((((...((((....))))...)))))))))))...... ( -21.40)
>DroMoj_CAF1 64804 111 - 1
UUGCUGUUUUUUUUUUUACUC-UUUUUUUAA-UGC----AUUUUCCGCUGCAUUCCGUUGCUAAUUGACGACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAACGCAAG-ACCC-G
((((.((((..((........-...((((((-(((----(........))).....(((((.....).)))).))))))).......((((....))))))..)))))))).-....-. ( -20.50)
>DroAna_CAF1 53030 96 - 1
--------------U--CCCAUCGCAGA--C-CGU----AUUUUCCACUGCAUUCCGUUGCUAAUUGAGGACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAAUGCAGACACCCCG
--------------.--...........--.-...----........(((((((..(((..((((((....))))))..........((((....)))))))..)))))))........ ( -20.20)
>consensus
______________UUGCCUCUUGCUGC__U_CAU____AUUUUCCGCUGCAUUCCGUUGCUAAUUGAGGACAAUUAAAAUUUAUUAGCUGGCAACAGCAAUUAAAUGCAGACACCCAG
...............................................(((((((..(((..((((((....))))))..........((((....)))))))..)))))))........ (-15.50 = -16.67 +   1.17)

alignment

secondary structure

dotplot

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