Locus 5188

Sequence ID	2R_DroMel_CAF1
Location	16,861,839 – 16,861,954
Length	115
Max. P	0.973756

overview

Window 4

Location	16,861,839 – 16,861,954
Length	115
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	90.16
Mean single sequence MFE	-36.04
Consensus MFE	-27.18
Energy contribution	-28.68
Covariance contribution	1.50
Combinations/Pair	1.00
Mean z-score	-2.83
Structure conservation index	0.75
SVM decision value	1.72
SVM RNA-class probability	0.973756
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16861839 115 + 20766785
UGCUAAGCAAACAUGCAUAAAUUGGCAUUGCGAUUGCCAUGGCCAUUGCCAUUGCCCCCAAUGGCAGCAAAUGGAUAAUGGCUAAUGGCCAUGCCCCGUAACUCGACGCCAGCCA
.(((..(((....))).......(((....((((((((((((((((((((((((.((....((....))...)).))))))).))))))))))....)))).)))..)))))).. ( -39.90)
>DroSec_CAF1 12272 115 + 1
UGCUAAGCAAACAUGCAUAAAUUGGCAUUGCGAUUGCCAUGGCCAUUGCCAUUGCCCCCACUGGCAGCAAAUGGAUAAUGGCUAAUGGCCAUGCCCCGUAACUCGACGCCAGCCA
.(((..(((....))).......(((....((((((((((((((((((((((((.((....((....))...)).))))))).))))))))))....)))).)))..)))))).. ( -39.90)
>DroSim_CAF1 12351 115 + 1
UGCUAAGCAAACAUGCAUAAAUUGGCAUUGCGAUUGCCAUGGCCAUUGCCAUUGCCCCCACUGGCAGCAAAUGGAUAAUGGCUAAUGGCCAUGCCCCGUAACUCGACGCCAGCCA
.(((..(((....))).......(((....((((((((((((((((((((((((.((....((....))...)).))))))).))))))))))....)))).)))..)))))).. ( -39.90)
>DroEre_CAF1 12589 97 + 1
UGCAAAGCAAACAUGCAUAAAUUGGCAUUGC------------------CAUUGCCCCCACUGGCAGCAAAUGGAUAAUGGCUAAUGGCCAUGCCCCGUAACUCGACGCCAGCCA
.((...(((....)))......((((.((((------------------...((((......))))))))((((...(((((.....)))))...))))........)))))).. ( -28.90)
>DroYak_CAF1 12545 102 + 1
UGCUAAGCAAACAUGCAUAAAUUGGCAUUGC------------CAUUGCCAUUGCCCCCACUGGCAGCAAAUGGAUAAUGGCUAAUGGCCAUGCC-CGUAACACGACGCCAGCCA
.(((..(((....))).......(((((.((------------(((((((((((.((....((....))...)).))))))).)))))).)))))-(((......)))..))).. ( -31.60)
>consensus
UGCUAAGCAAACAUGCAUAAAUUGGCAUUGCGAUUGCCAUGGCCAUUGCCAUUGCCCCCACUGGCAGCAAAUGGAUAAUGGCUAAUGGCCAUGCCCCGUAACUCGACGCCAGCCA
.((...(((....)))......((((.((((........((((....)))).((((......))))))))((((...(((((.....)))))...))))........)))))).. (-27.18 = -28.68 +   1.50)

alignment

secondary structure

dotplot

Window 5

Location	16,861,839 – 16,861,954
Length	115
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	90.16
Mean single sequence MFE	-42.44
Consensus MFE	-28.66
Energy contribution	-29.86
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-2.75
Structure conservation index	0.68
SVM decision value	0.30
SVM RNA-class probability	0.679897
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16861839 115 - 20766785
UGGCUGGCGUCGAGUUACGGGGCAUGGCCAUUAGCCAUUAUCCAUUUGCUGCCAUUGGGGGCAAUGGCAAUGGCCAUGGCAAUCGCAAUGCCAAUUUAUGCAUGUUUGCUUAGCA
..(((((((((((.......(.((((((((((.(((((........((((.((...)).))))))))))))))))))).)..)))..))))).......(((....)))..))). ( -44.70)
>DroSec_CAF1 12272 115 - 1
UGGCUGGCGUCGAGUUACGGGGCAUGGCCAUUAGCCAUUAUCCAUUUGCUGCCAGUGGGGGCAAUGGCAAUGGCCAUGGCAAUCGCAAUGCCAAUUUAUGCAUGUUUGCUUAGCA
..(((((((((((.......(.((((((((((.((((((..((..(..(.....)..)))..)))))))))))))))).)..)))..))))).......(((....)))..))). ( -45.70)
>DroSim_CAF1 12351 115 - 1
UGGCUGGCGUCGAGUUACGGGGCAUGGCCAUUAGCCAUUAUCCAUUUGCUGCCAGUGGGGGCAAUGGCAAUGGCCAUGGCAAUCGCAAUGCCAAUUUAUGCAUGUUUGCUUAGCA
..(((((((((((.......(.((((((((((.((((((..((..(..(.....)..)))..)))))))))))))))).)..)))..))))).......(((....)))..))). ( -45.70)
>DroEre_CAF1 12589 97 - 1
UGGCUGGCGUCGAGUUACGGGGCAUGGCCAUUAGCCAUUAUCCAUUUGCUGCCAGUGGGGGCAAUG------------------GCAAUGCCAAUUUAUGCAUGUUUGCUUUGCA
(.(((((((.(((((...(((..(((((.....)))))..)))))))).))))))).)..((((.(------------------(((((((........))))...)))))))). ( -33.10)
>DroYak_CAF1 12545 102 - 1
UGGCUGGCGUCGUGUUACG-GGCAUGGCCAUUAGCCAUUAUCCAUUUGCUGCCAGUGGGGGCAAUGGCAAUG------------GCAAUGCCAAUUUAUGCAUGUUUGCUUAGCA
..(((((((.(((((....-(((((.((((((.((((((..((..(..(.....)..)))..))))))))))------------)).))))).......)))))..))).)))). ( -43.00)
>consensus
UGGCUGGCGUCGAGUUACGGGGCAUGGCCAUUAGCCAUUAUCCAUUUGCUGCCAGUGGGGGCAAUGGCAAUGGCCAUGGCAAUCGCAAUGCCAAUUUAUGCAUGUUUGCUUAGCA
(.(((((((.(((((...(((..(((((.....)))))..)))))))).))))))).).((((...((....((....))....))..)))).......(((....)))...... (-28.66 = -29.86 +   1.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:45 2006