Locus 2533

Sequence ID	X_DroMel_CAF1
Location	6,757,868 – 6,757,980
Length	112
Max. P	0.808230

overview

Window 6

Location	6,757,868 – 6,757,980
Length	112
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	79.27
Mean single sequence MFE	-33.67
Consensus MFE	-23.04
Energy contribution	-24.49
Covariance contribution	1.45
Combinations/Pair	1.17
Mean z-score	-1.80
Structure conservation index	0.68
SVM decision value	0.64
SVM RNA-class probability	0.808230
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6757868 112 + 22224390
ACUACAACAGCAA---CAAAUAGCCAAACAAAAAGUUUUGGCUUUAGUUUUUGCAUUCGGCUUCGGAUUUGGCCUAUGGCCAUAACGAGAUGGCCGAUUUCGAUGGGUUGAGGGA-----
.((.((((.((((---.((..(((((((........)))))))....)).))))..(((((((((....(((((...)))))...)))...)))))).........)))).))..----- ( -36.60)
>DroEre_CAF1 46575 117 + 1
ACUACAACAGCAA---CAAAUAGCCAAACAAAAAGUUUUGGCUUUAGUUUUUGCAUUCGGUUUCGGAUUUGGCCUAUGGCCAUAACGAGAUGGCCGAUGCGGAUGGGUUGAGGGGGAGGG
.((.(..(..(((---(....(((((((........)))))))......(((((((.((((((((....(((((...)))))...))))...)))))))))))...))))..)..).)). ( -37.40)
>DroAna_CAF1 53557 120 + 1
AGGAAAAUGGCCAAGCGAAAUGGCUAAACAAAAAGUUUUGGCUUUAGUUUUUGCAUUUGGCUUUGGAUUUGGCCUAAGGCCAUAACGAGAUGAGACAAGGGGGGGGAAGAAGGGGGUGGG
......((((((..((((((.(((((((........))))))).....))))))....((((........))))...))))))..................................... ( -27.00)
>consensus
ACUACAACAGCAA___CAAAUAGCCAAACAAAAAGUUUUGGCUUUAGUUUUUGCAUUCGGCUUCGGAUUUGGCCUAUGGCCAUAACGAGAUGGCCGAUGCGGAUGGGUUGAGGGGG_GGG
....((((.((((........(((((((........))))))).......))))..(((((((((....(((((...)))))...)))...)))))).........)))).......... (-23.04 = -24.49 +   1.45)

alignment

secondary structure

dotplot

Window 7

Location	6,757,868 – 6,757,980
Length	112
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	79.27
Mean single sequence MFE	-25.77
Consensus MFE	-15.09
Energy contribution	-15.77
Covariance contribution	0.67
Combinations/Pair	1.15
Mean z-score	-2.24
Structure conservation index	0.59
SVM decision value	0.62
SVM RNA-class probability	0.800759
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6757868 112 - 22224390
-----UCCCUCAACCCAUCGAAAUCGGCCAUCUCGUUAUGGCCAUAGGCCAAAUCCGAAGCCGAAUGCAAAAACUAAAGCCAAAACUUUUUGUUUGGCUAUUUG---UUGCUGUUGUAGU
-----...((((((.........(((((....(((...(((((...)))))....))).)))))..((((.......(((((((.(.....)))))))).....---)))).)))).)). ( -30.00)
>DroEre_CAF1 46575 117 - 1
CCCUCCCCCUCAACCCAUCCGCAUCGGCCAUCUCGUUAUGGCCAUAGGCCAAAUCCGAAACCGAAUGCAAAAACUAAAGCCAAAACUUUUUGUUUGGCUAUUUG---UUGCUGUUGUAGU
........((((((......(((((((.....(((...(((((...)))))....)))..))).))))...(((...(((((((.(.....))))))))....)---))...)))).)). ( -27.70)
>DroAna_CAF1 53557 120 - 1
CCCACCCCCUUCUUCCCCCCCCUUGUCUCAUCUCGUUAUGGCCUUAGGCCAAAUCCAAAGCCAAAUGCAAAAACUAAAGCCAAAACUUUUUGUUUAGCCAUUUCGCUUGGCCAUUUUCCU
.....................................((((((...((......)).((((.(((((...((((.((((......))))..))))...))))).))))))))))...... ( -19.60)
>consensus
CCC_CCCCCUCAACCCAUCCACAUCGGCCAUCUCGUUAUGGCCAUAGGCCAAAUCCGAAGCCGAAUGCAAAAACUAAAGCCAAAACUUUUUGUUUGGCUAUUUG___UUGCUGUUGUAGU
.........................((((((......))))))...((((((((..((((......((..........)).....))))..))))))))..................... (-15.09 = -15.77 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:04 2006