Locus 5979

Sequence ID	2R_DroMel_CAF1
Location	18,811,370 – 18,811,484
Length	114
Max. P	0.999747

overview

Window 1

Location	18,811,370 – 18,811,484
Length	114
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	99.65
Mean single sequence MFE	-29.60
Consensus MFE	-29.60
Energy contribution	-29.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-3.95
Structure conservation index	1.00
SVM decision value	3.86
SVM RNA-class probability	0.999671
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18811370 114 + 20766785
CGAAUAAUUCAGCUGGCUGCCCACAAUUUCAUUCCCAAUUAAUGUUAGUUGUGCGGCCUUUAAACCUGAUUAUAUUUCAUGUUUCCCCAGCCGCUUCAUCAGCAGCCAUAAUUU
.............(((((((..((((((.((((.......))))..))))))(((((....((((.(((.......))).)))).....))))).......)))))))...... ( -29.60)
>DroSec_CAF1 3257 114 + 1
CGAAUAAUUCAGCUGGCUGCCCACAAUUUCAUUCCCAAUUAAUGUUAGUUGUGCGGCCUUUAAACCUGAUUAUAUUUCAUGUUUCCCCAGCCGCUUCAUCAGCAGCCAUAAUUU
.............(((((((..((((((.((((.......))))..))))))(((((....((((.(((.......))).)))).....))))).......)))))))...... ( -29.60)
>DroSim_CAF1 3316 114 + 1
CGAAUAAUUCAGCUGGCUGCCCACAAUUUCAUUCCCAAUUAAUGUUAGUUGUGCGGCCUUUAAACCUGAUUAUAUUUCAUGUUUCCCCAGCCGCUUCAUCAGCAGCCAUAAUUU
.............(((((((..((((((.((((.......))))..))))))(((((....((((.(((.......))).)))).....))))).......)))))))...... ( -29.60)
>DroEre_CAF1 1950 114 + 1
CGAAUAAUUCAGCUGGCUGCCCACAAUUUCAUUCCCAAUUAAUGUUAGUUGUGCGGCCUUUAAACCUGAUUAUAUUUCAUGUUUCCCCAGCCGCUUCAUCAGCAGCCAUAAUUU
.............(((((((..((((((.((((.......))))..))))))(((((....((((.(((.......))).)))).....))))).......)))))))...... ( -29.60)
>DroYak_CAF1 2082 114 + 1
CGAAUAAUACAGCUGGCUGCCCACAAUUUCAUUCCCAAUUAAUGUUAGUUGUGCGGCCUUUAAACCUGAUUAUAUUUCAUGUUUCCCCAGCCGCUUCAUCAGCAGCCAUAAUUU
.............(((((((..((((((.((((.......))))..))))))(((((....((((.(((.......))).)))).....))))).......)))))))...... ( -29.60)
>consensus
CGAAUAAUUCAGCUGGCUGCCCACAAUUUCAUUCCCAAUUAAUGUUAGUUGUGCGGCCUUUAAACCUGAUUAUAUUUCAUGUUUCCCCAGCCGCUUCAUCAGCAGCCAUAAUUU
.............(((((((..((((((.((((.......))))..))))))(((((....((((.(((.......))).)))).....))))).......)))))))...... (-29.60 = -29.60 +  -0.00)

alignment

secondary structure

dotplot

Window 2

Location	18,811,370 – 18,811,484
Length	114
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	99.65
Mean single sequence MFE	-35.14
Consensus MFE	-34.90
Energy contribution	-34.90
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-3.51
Structure conservation index	0.99
SVM decision value	3.99
SVM RNA-class probability	0.999747
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18811370 114 - 20766785
AAAUUAUGGCUGCUGAUGAAGCGGCUGGGGAAACAUGAAAUAUAAUCAGGUUUAAAGGCCGCACAACUAACAUUAAUUGGGAAUGAAAUUGUGGGCAGCCAGCUGAAUUAUUCG
.((((.((((((((.(..(.((((((....((((.(((.......))).))))...))))))....((((......))))........)..).))))))))....))))..... ( -35.20)
>DroSec_CAF1 3257 114 - 1
AAAUUAUGGCUGCUGAUGAAGCGGCUGGGGAAACAUGAAAUAUAAUCAGGUUUAAAGGCCGCACAACUAACAUUAAUUGGGAAUGAAAUUGUGGGCAGCCAGCUGAAUUAUUCG
.((((.((((((((.(..(.((((((....((((.(((.......))).))))...))))))....((((......))))........)..).))))))))....))))..... ( -35.20)
>DroSim_CAF1 3316 114 - 1
AAAUUAUGGCUGCUGAUGAAGCGGCUGGGGAAACAUGAAAUAUAAUCAGGUUUAAAGGCCGCACAACUAACAUUAAUUGGGAAUGAAAUUGUGGGCAGCCAGCUGAAUUAUUCG
.((((.((((((((.(..(.((((((....((((.(((.......))).))))...))))))....((((......))))........)..).))))))))....))))..... ( -35.20)
>DroEre_CAF1 1950 114 - 1
AAAUUAUGGCUGCUGAUGAAGCGGCUGGGGAAACAUGAAAUAUAAUCAGGUUUAAAGGCCGCACAACUAACAUUAAUUGGGAAUGAAAUUGUGGGCAGCCAGCUGAAUUAUUCG
.((((.((((((((.(..(.((((((....((((.(((.......))).))))...))))))....((((......))))........)..).))))))))....))))..... ( -35.20)
>DroYak_CAF1 2082 114 - 1
AAAUUAUGGCUGCUGAUGAAGCGGCUGGGGAAACAUGAAAUAUAAUCAGGUUUAAAGGCCGCACAACUAACAUUAAUUGGGAAUGAAAUUGUGGGCAGCCAGCUGUAUUAUUCG
......((((((((.(..(.((((((....((((.(((.......))).))))...))))))....((((......))))........)..).))))))))............. ( -34.90)
>consensus
AAAUUAUGGCUGCUGAUGAAGCGGCUGGGGAAACAUGAAAUAUAAUCAGGUUUAAAGGCCGCACAACUAACAUUAAUUGGGAAUGAAAUUGUGGGCAGCCAGCUGAAUUAUUCG
......((((((((.(..(.((((((....((((.(((.......))).))))...))))))....((((......))))........)..).))))))))............. (-34.90 = -34.90 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:33 2006