Locus 6126

Sequence ID	3L_DroMel_CAF1
Location	16,221,321 – 16,221,559
Length	238
Max. P	0.957236

overview

Window 0

Location	16,221,321 – 16,221,439
Length	118
Sequences	4
Columns	118
Reading direction	reverse
Mean pairwise identity	95.42
Mean single sequence MFE	-38.77
Consensus MFE	-34.80
Energy contribution	-34.67
Covariance contribution	-0.12
Combinations/Pair	1.06
Mean z-score	-2.47
Structure conservation index	0.90
SVM decision value	1.48
SVM RNA-class probability	0.957236
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16221321 118 - 23771897
UACGUCUACAUGAAGGGCAUGUCGGGACUGUAUUCCCGAGUGCCCAGCUAUGCGGUCUGCUAUCCGUAUACCCUACAGCACAUGUACUAAAACAUGUCCUGGGACACCAUAAAAUGGA
...((((.......((((((.((((((......))))))))))))...(((((((........))))))).....(((.((((((......)))))).))))))).((((...)))). ( -44.30)
>DroSec_CAF1 40186 114 - 1
UACGUCUACAUGAAGGGCAUGUCGGGACUGUAUUCCCGAGUGCCCAGUUAUGCGGUCUGCUAUCCGUACACCCUGCAGCACAUGUACUAAAACA---CCUGGGCUA-CAUAAAAUGGA
...(((((..((..((((((.((((((......)))))))))))).((..((((((.(((.....))).)))..)))..))...........))---..)))))..-........... ( -33.70)
>DroSim_CAF1 41821 115 - 1
UACGUCUACAUGAAGGGCAUGUCGGGACUGUAUUCCCGAGUGCCCAGCUAUGCGGUCUGCUAUCCGUACACCCUGCAGCACAUGUACUAAAACA---CCUGGGACACCAUAAAAUGGA
...(((((((((..((((((.((((((......)))))))))))).(((..(.(((.(((.....))).))).)..))).))))))(((.....---..)))))).((((...)))). ( -39.50)
>DroEre_CAF1 40041 115 - 1
UACGUCUACAUGAAGGGCAUGUCGGGACUGUAUUCCCGAGUGCCCAGCUAUGCGGUCUGCUAUCCGUACACCCUGCAGCACAUGUACUAAAACA---CCUGGGACAGCAAAAAAUGGA
...(((((((((..((((((.((((((......)))))))))))).(((..(.(((.(((.....))).))).)..))).))))))(((.....---..))))))............. ( -37.60)
>consensus
UACGUCUACAUGAAGGGCAUGUCGGGACUGUAUUCCCGAGUGCCCAGCUAUGCGGUCUGCUAUCCGUACACCCUGCAGCACAUGUACUAAAACA___CCUGGGACACCAUAAAAUGGA
...(((((((((..((((((.((((((......)))))))))))).(((..(.(((.(((.....))).))).)..))).))))))(((..........))))))............. (-34.80 = -34.67 +  -0.12)

alignment

secondary structure

dotplot

Window 1

Location	16,221,439 – 16,221,559
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	95.69
Mean single sequence MFE	-51.85
Consensus MFE	-51.04
Energy contribution	-50.60
Covariance contribution	-0.44
Combinations/Pair	1.14
Mean z-score	-2.03
Structure conservation index	0.98
SVM decision value	1.44
SVM RNA-class probability	0.954373
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16221439 120 + 23771897
CUGGACUGGCGGUCGCAGGAUGCUCUGCUGCUUCUUAUCCUCCUUCUUGGAGGCGGGAGCACGGGAGAAUUUGGAGCUGGAGCUGCUGCUGCUGCUGUUGUUCGAGUUGUUCGGCGACAG
.(((((.((((((.((((.(.((((((((((((((...(((((.....))))).)))))).(....).......))).)))))).)))).))))))...))))).((((.....)))).. ( -49.80)
>DroSec_CAF1 40300 120 + 1
CUGGACUGGCGGUCGUAGGAUGCUCUGCUGCUUCUUGUCCUCCUUCAUGGAGGCGGGAGCUCGGGAGGAUUUGGAGCUAGAGCUGCUGCUGCUGCUGUUGUUCGAGUUGUUCGGCGACAG
.(((((.((((((.((((.(.((((((..(((((..((((((((.....(((.(....))))))))))))..)))))))))))).)))).))))))...))))).((((.....)))).. ( -53.20)
>DroSim_CAF1 41936 120 + 1
CUGGACUGGCGGUCGUAGGAUGCUCUGCUGCUUCUUGUCCUCCUUCUUGGAGGCGGGAGCACGGGAGGAUUUGGAGCUGGAGCUGCUGCUGCUGCUGUUGUUCGAGUUGUUCGGCGACAG
.(((((.((((((.((((.(.(((((...(((((..(((((((((((((....)))))....))))))))..))))).)))))).)))).))))))...))))).((((.....)))).. ( -52.70)
>DroEre_CAF1 40156 120 + 1
CUGGACUGGCGGCCGCAGGAUGCUCUGCUGCUUCUUGUCCUCCUUCUUAGAGGCAGGAGCACGGGAGGAUUUGGAGCUGGAGCUGCUGCUGCUGCUGUUGUUUGAGUUGUUCGGCGACAG
...(((.((((((.((((.(.(((((...(((((..((((((((((((......))))....))))))))..))))).)))))).)))).)))))))))......((((.....)))).. ( -51.70)
>consensus
CUGGACUGGCGGUCGCAGGAUGCUCUGCUGCUUCUUGUCCUCCUUCUUGGAGGCGGGAGCACGGGAGGAUUUGGAGCUGGAGCUGCUGCUGCUGCUGUUGUUCGAGUUGUUCGGCGACAG
..((((.((((((.((((.(.(((((...(((((..(((((((((((((....)))))....))))))))..))))).)))))).)))).))))))...))))..((((.....)))).. (-51.04 = -50.60 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:44 2006