Locus 5916

Sequence ID	2L_DroMel_CAF1
Location	16,702,528 – 16,702,678
Length	150
Max. P	0.683936

overview

Window 1

Location	16,702,528 – 16,702,638
Length	110
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	86.21
Mean single sequence MFE	-30.05
Consensus MFE	-22.39
Energy contribution	-23.82
Covariance contribution	1.44
Combinations/Pair	1.16
Mean z-score	-1.66
Structure conservation index	0.75
SVM decision value	0.31
SVM RNA-class probability	0.683936
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16702528 110 - 22407834
AAAUAUGGGA---GGAGUGGAAUAGAUUGUGCAUUGCAUAAUUGUCAAUGACAUGGAACACACGCAAUCUGUCUCCUUCCUCAAUUCUAUGUAAUCUUCGCUGCCAGGGGCAU-------
..((((((((---((((.((((((((((((((((((((....)).)))))...((.....)))))))))))).)))))))))....)))))).........((((...)))).------- ( -33.80)
>DroSec_CAF1 157232 113 - 1
AAAUAUGGGAGGAGGAGUGGAAUAGAUUGUGCAUUGCAUAAUUGUCAAUGACAUGGAACACACGCAAUCUGUCUUCUUCCUCAAUUCUAUGUAAUCUUUGCUGCCAGGUAAAU-------
..((((((((.((((((.((((((((((((((((((((....)).)))))...((.....)))))))))))).)))))))))..))))))))....((((((....)))))).------- ( -34.30)
>DroSim_CAF1 157157 113 - 1
AAAUAUGGGAGGAGGAGUGGAAUAGAUUGUGCAUUGCAUAAUUGUCAUUGACAUGGAACACACGCAAUCUGUCUCCUUCCUCAAUUCUAUGUAAUCUUUGCUGCCAGGUACAU-------
..((((((((.((((((.(((((((((((((...((......((((...)))).....))..)))))))))).)))))))))..))))))))......((((....))))...------- ( -32.20)
>DroEre_CAF1 158605 114 - 1
AAAUGUGGGC---GGGUUGGAAUAGAUUGUGCAUUGCAUAAUUACCAAUGGCACGGAACACACGCAAUCUUUCU---UCUUCAAUUCUAUGUAAUCUUUUCUACCAGGGACAUACUCGUU
.......(((---(((((((((.(((((((((((((.........)))))....(.....).))))))))))).---........(((..(((........)))...))))).))))))) ( -19.90)
>consensus
AAAUAUGGGA___GGAGUGGAAUAGAUUGUGCAUUGCAUAAUUGUCAAUGACAUGGAACACACGCAAUCUGUCUCCUUCCUCAAUUCUAUGUAAUCUUUGCUGCCAGGGACAU_______
..(((((((..((((((.((((((((((((((((((((....)).)))))....(.....).)))))))))).)))))))))...)))))))......((((....)))).......... (-22.39 = -23.82 +   1.44)

alignment

secondary structure

dotplot

Window 2

Location	16,702,561 – 16,702,678
Length	117
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	90.52
Mean single sequence MFE	-34.25
Consensus MFE	-26.12
Energy contribution	-27.62
Covariance contribution	1.50
Combinations/Pair	1.00
Mean z-score	-1.75
Structure conservation index	0.76
SVM decision value	0.27
SVM RNA-class probability	0.659718
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16702561 117 - 22407834
GAGAAUUGAAAUUAAUUUGCUGCCAGAAGGCGGUGGGUGGAAAUAUGGGA---GGAGUGGAAUAGAUUGUGCAUUGCAUAAUUGUCAAUGACAUGGAACACACGCAAUCUGUCUCCUUCC
..............(((..(((((....)))))..)))........((((---((((....(((((((((((((((((....)).)))))...((.....)))))))))))))))))))) ( -39.40)
>DroSec_CAF1 157265 120 - 1
GGGAAUUGAAAUUAAUUUGCUGCCAGAAGGCGGUGGGUGGAAAUAUGGGAGGAGGAGUGGAAUAGAUUGUGCAUUGCAUAAUUGUCAAUGACAUGGAACACACGCAAUCUGUCUUCUUCC
..............(((..(((((....)))))..))).........(((((((((......((((((((((((((((....)).)))))...((.....)))))))))))))))))))) ( -36.60)
>DroSim_CAF1 157190 120 - 1
GGGAAUUGAAAUUAAUUUGCUGCCAGAAUGCGGUGGGUGGAAAUAUGGGAGGAGGAGUGGAAUAGAUUGUGCAUUGCAUAAUUGUCAUUGACAUGGAACACACGCAAUCUGUCUCCUUCC
..............(((..((((......))))..)))........((((((((.......((((((((((...((......((((...)))).....))..)))))))))))))))))) ( -31.41)
>DroEre_CAF1 158645 114 - 1
GGGAAUUGAAAUUAAUUUGCUGCCCAAAGGCGGUGGGUGGAAAUGUGGGC---GGGUUGGAAUAGAUUGUGCAUUGCAUAAUUACCAAUGGCACGGAACACACGCAAUCUUUCU---UCU
(..(((((......(((..(((((....)))))..))).....((((..(---.((((((....((((((((...)))))))).)))))....).)..))))..)))).)..).---... ( -29.60)
>consensus
GGGAAUUGAAAUUAAUUUGCUGCCAGAAGGCGGUGGGUGGAAAUAUGGGA___GGAGUGGAAUAGAUUGUGCAUUGCAUAAUUGUCAAUGACAUGGAACACACGCAAUCUGUCUCCUUCC
..............(((..(((((....)))))..)))...............((((.(((.((((((((((((((((....)).)))))....(.....).)))))))))))).)))). (-26.12 = -27.62 +   1.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:26 2006