Locus 5181

Sequence ID	2L_DroMel_CAF1
Location	14,667,038 – 14,667,128
Length	90
Max. P	0.952493

overview

Window 8

Location	14,667,038 – 14,667,128
Length	90
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	85.20
Mean single sequence MFE	-15.56
Consensus MFE	-11.12
Energy contribution	-11.72
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.82
Structure conservation index	0.71
SVM decision value	0.31
SVM RNA-class probability	0.681726
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14667038 90 + 22407834
AACUCGUUUUU------------UCUUCUUGGCUGAAAACUUUUGAAAUUGUUUUCUGCUUGUUUUUGCGGCUUGUAAUUGUUGUUAUUAUACAAUUUGCAA
...((((....------------.(.....(((.((((((..........)))))).))).).....))))..(((((..(((((......)))))))))). ( -14.50)
>DroSec_CAF1 21602 81 + 1
---------UU------------UCUUCUUGCCUGAAAACUUUUGAAAUUGUUUUCUGCUUGUUUUUGCGGCUUGUAAUUGUUGUUAUUAUACAAUUUGCAA
---------..------------.......((((((((((....((((....)))).....))))))).))).(((((..(((((......)))))))))). ( -15.50)
>DroSim_CAF1 23276 81 + 1
---------UU------------UCUUCUUGCCUGAAAACUUUUGAAAUUGUUUUCUGCUUGUUUUUGCGGCUUGUAAUUGUUGUUAUUAUACAAUUUGCAA
---------..------------.......((((((((((....((((....)))).....))))))).))).(((((..(((((......)))))))))). ( -15.50)
>DroEre_CAF1 21667 102 + 1
UGCUCGUUUUUGUCUCUUGUUUGUCUUCUUGGCAGAAAACUUUUAAAAUUGUUUUCUGCAUGUUUUUGCGGCUUGUAAUUGUUGUUAUUAUACAAUUUGCAA
.((.(((....(.(........).)......(((((((((..........)))))))))........))))).(((((..(((((......)))))))))). ( -19.80)
>DroYak_CAF1 22026 90 + 1
UUCUCGUUUUU------------UCUUCUUGCUUGAAAACUUUUAAAAUUGUUUUCUGCUUGUUUUGGCUGCUUGUAAUUGUUGUUAUUAUACAAUUUGCAA
...........------------.......((..((((((..........)))))).(((......))).)).(((((..(((((......)))))))))). ( -12.50)
>consensus
__CUCGUUUUU____________UCUUCUUGCCUGAAAACUUUUGAAAUUGUUUUCUGCUUGUUUUUGCGGCUUGUAAUUGUUGUUAUUAUACAAUUUGCAA
..............................(((.((((((..........)))))).((........))))).(((((..(((((......)))))))))). (-11.12 = -11.72 +   0.60)

alignment

secondary structure

dotplot

Window 9

Location	14,667,038 – 14,667,128
Length	90
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	85.20
Mean single sequence MFE	-12.97
Consensus MFE	-9.22
Energy contribution	-9.42
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.62
Structure conservation index	0.71
SVM decision value	1.42
SVM RNA-class probability	0.952493
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14667038 90 - 22407834
UUGCAAAUUGUAUAAUAACAACAAUUACAAGCCGCAAAAACAAGCAGAAAACAAUUUCAAAAGUUUUCAGCCAAGAAGA------------AAAAACGAGUU
((((...(((((.............)))))...))))......((.((((((..........)))))).))........------------........... ( -11.52)
>DroSec_CAF1 21602 81 - 1
UUGCAAAUUGUAUAAUAACAACAAUUACAAGCCGCAAAAACAAGCAGAAAACAAUUUCAAAAGUUUUCAGGCAAGAAGA------------AA---------
.....((((((.........))))))....(((((........)).((((((..........)))))).))).......------------..--------- ( -13.20)
>DroSim_CAF1 23276 81 - 1
UUGCAAAUUGUAUAAUAACAACAAUUACAAGCCGCAAAAACAAGCAGAAAACAAUUUCAAAAGUUUUCAGGCAAGAAGA------------AA---------
.....((((((.........))))))....(((((........)).((((((..........)))))).))).......------------..--------- ( -13.20)
>DroEre_CAF1 21667 102 - 1
UUGCAAAUUGUAUAAUAACAACAAUUACAAGCCGCAAAAACAUGCAGAAAACAAUUUUAAAAGUUUUCUGCCAAGAAGACAAACAAGAGACAAAAACGAGCA
((((...(((((.............)))))...))))......(((((((((..........)))))))))............................... ( -16.62)
>DroYak_CAF1 22026 90 - 1
UUGCAAAUUGUAUAAUAACAACAAUUACAAGCAGCCAAAACAAGCAGAAAACAAUUUUAAAAGUUUUCAAGCAAGAAGA------------AAAAACGAGAA
((((.((((((.........)))))).......((........)).((((((..........))))))..)))).....------------........... ( -10.30)
>consensus
UUGCAAAUUGUAUAAUAACAACAAUUACAAGCCGCAAAAACAAGCAGAAAACAAUUUCAAAAGUUUUCAGGCAAGAAGA____________AAAAACGAG__
((((...(((((.............)))))...)))).........((((((..........)))))).................................. ( -9.22 =  -9.42 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:01 2006