Locus 203

Sequence ID	3R_DroMel_CAF1
Location	867,842 – 868,002
Length	160
Max. P	0.985390

overview

Window 5

Location	867,842 – 867,962
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	95.56
Mean single sequence MFE	-42.08
Consensus MFE	-39.72
Energy contribution	-40.10
Covariance contribution	0.38
Combinations/Pair	1.06
Mean z-score	-2.64
Structure conservation index	0.94
SVM decision value	2.01
SVM RNA-class probability	0.985390
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 867842 120 - 27905053
GCAAUGUAAUCUAUCCGCUGGCAUCUUGCGGAUGCGAAAGAGUAUCCGAAGUUGCCAUGUGGGAUUCGGUCAGCAGUUUGCGGCCGGGGCUUUUCGCAUUUAUUUGCAAUUAAUUUUAUC
((...........((((((((((.(((.(((((((......)))))))))).))))).))))).(((((((.((.....))))))))))).....(((......)))............. ( -44.00)
>DroSec_CAF1 42849 120 - 1
GCAAUGUUAUCUAGCCGCUGGCAUCUUGCGGAUGCGAAAGAGUAUCCGAAGUUGCCAUGUGGGAUUCGGUCAGCAGUUUGCGGCCGGGGCUUUUCGCAUUUAUUUGCAAUUAAUUUUAUC
((............(((((((((.(((.(((((((......)))))))))).))))).))))..(((((((.((.....))))))))))).....(((......)))............. ( -43.40)
>DroSim_CAF1 42063 120 - 1
GCAAUGUUAUCUAGCCGCUGGCAUCUUGCGGAUGCGAAAGAGUAUCCGAAGUUGCCAUGUGGGAUUCGGUCAGCAGUUUGCGACCGGGGCUUUUCGCAUUUAUUUGCAAUUAAUUUUAUC
((............(((((((((.(((.(((((((......)))))))))).))))).))))..(((((((.((.....))))))))))).....(((......)))............. ( -44.00)
>DroEre_CAF1 42277 120 - 1
GCAAUUUCAUCUAGCCGCUGGAAUCUCGAGGAUGCGAAAGAGUAUCCGAAGUUGCCAAGUGGGAUUCGGUCUGCAGUUUGCGGCCGGGGUUUUUCGCAUUUAUUUGCAAUUAAUUUUAUC
((((((((.(((((...))))).......((((((......))))))))))))))...(((..((((((.((((.....)))))))))...)..)))....................... ( -36.90)
>consensus
GCAAUGUUAUCUAGCCGCUGGCAUCUUGCGGAUGCGAAAGAGUAUCCGAAGUUGCCAUGUGGGAUUCGGUCAGCAGUUUGCGGCCGGGGCUUUUCGCAUUUAUUUGCAAUUAAUUUUAUC
((............(((((((((.(((.(((((((......)))))))))).))))).))))..(((((((.((.....))))))))))).....(((......)))............. (-39.72 = -40.10 +   0.38)

alignment

secondary structure

dotplot

Window 6

Location	867,882 – 868,002
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	95.14
Mean single sequence MFE	-42.88
Consensus MFE	-37.97
Energy contribution	-38.98
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-1.59
Structure conservation index	0.89
SVM decision value	0.16
SVM RNA-class probability	0.612377
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 867882 120 - 27905053
UAUGGCGCGACGCUUGAUGCUUCUGCUUCCCAUGUAGAGCGCAAUGUAAUCUAUCCGCUGGCAUCUUGCGGAUGCGAAAGAGUAUCCGAAGUUGCCAUGUGGGAUUCGGUCAGCAGUUUG
..((((.(((.(((((.((((.((((.......))))))))))).))......((((((((((.(((.(((((((......)))))))))).))))).)))))..)))))))........ ( -45.40)
>DroSec_CAF1 42889 120 - 1
UAUGGUGCGACGCUUGAUGCUUCUGCUUCCCAUGUAGAGCGCAAUGUUAUCUAGCCGCUGGCAUCUUGCGGAUGCGAAAGAGUAUCCGAAGUUGCCAUGUGGGAUUCGGUCAGCAGUUUG
.....(((((((((((.((((.((((.......))))))))))).)).......(((((((((.(((.(((((((......)))))))))).))))).))))......))).)))..... ( -43.90)
>DroSim_CAF1 42103 120 - 1
UAUGGUGCGACGCUUGAUGCUUCUGCUUCCCAUGUAGAGCGCAAUGUUAUCUAGCCGCUGGCAUCUUGCGGAUGCGAAAGAGUAUCCGAAGUUGCCAUGUGGGAUUCGGUCAGCAGUUUG
.....(((((((((((.((((.((((.......))))))))))).)).......(((((((((.(((.(((((((......)))))))))).))))).))))......))).)))..... ( -43.90)
>DroEre_CAF1 42317 120 - 1
UAUGGUGCGACGCUCGAUGCUUCUGCUUCCCAUGUUGAGCGCAAUUUCAUCUAGCCGCUGGAAUCUCGAGGAUGCGAAAGAGUAUCCGAAGUUGCCAAGUGGGAUUCGGUCUGCAGUUUG
.....((((((((.....))...((..((((((.(((...((((((((.(((((...))))).......((((((......)))))))))))))))))))))))..))))).)))..... ( -38.30)
>consensus
UAUGGUGCGACGCUUGAUGCUUCUGCUUCCCAUGUAGAGCGCAAUGUUAUCUAGCCGCUGGCAUCUUGCGGAUGCGAAAGAGUAUCCGAAGUUGCCAUGUGGGAUUCGGUCAGCAGUUUG
......(((((......(((((((((.......)))))).)))...........(((((((((.(((.(((((((......)))))))))).))))).))))......))).))...... (-37.97 = -38.98 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:20 2006