Locus 2766

Sequence ID	2R_DroMel_CAF1
Location	9,683,786 – 9,683,946
Length	160
Max. P	0.553594

overview

Window 1

Location	9,683,786 – 9,683,906
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	94.58
Mean single sequence MFE	-37.28
Consensus MFE	-30.85
Energy contribution	-31.35
Covariance contribution	0.50
Combinations/Pair	1.11
Mean z-score	-1.69
Structure conservation index	0.83
SVM decision value	0.04
SVM RNA-class probability	0.553594
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9683786 120 + 20766785
GGAGUGGUAACUCAUCCCACAAUCCUGUCCUUUUGCUCUGGCUUAGCCGCUGGGUCAUUUGUCUCGCUGGCAAUCACUCCAUUGGAUGUGGUUACCACUCGUCUUUACAAUCAGGGAGUU
.((((((((((((((((........((.(((...((...(((...))))).))).)).(((((.....)))))..........))))).))))))))))).(((((......)))))... ( -37.60)
>DroSim_CAF1 6270 120 + 1
GGAGUGGUAACUCAUCCCACAAUCGUGUCCUUCUGCUCUGGCUUAGCCGCUGGUUCAUUUGUCUCGUUGGCAAUCACUCCAUUGGAUGUGGUUACCACUCGUCUUUACAACCAGGGAGUU
.((((((((((((((((.......(((..((...((....))..)).)))(((.....(((((.....))))).....)))..))))).))))))))))).(((((......)))))... ( -37.10)
>DroEre_CAF1 6340 120 + 1
GGAGUGGUAGCUCAUCCCACAAUCCUGUCCUUUUGCUCUGGCCUAGCCGCUGGGUCAUUUGUGUCGCUGGUAAUCACUCCAUUGGAUGUGAUUACCACUCGUCUUUACAAUCAGGGAGUU
.((((....)))).((((....................((((((((...)))))))).(((((.((.(((((((((((((...))).))))))))))..))....)))))...))))... ( -39.10)
>DroYak_CAF1 6313 120 + 1
GGAGUGGUAACUCAUCCCACAAUCCUGUCCUUCUGCUCUGGCCUAGCCGCUGGCUCAUUUGUGUCGCUGGCAAUCACUCCAUUGGAUGUGAUUACCACUCGACUUUACAAUCAGGGAGUU
.((((((((((.(((((......................(((...)))((..((.((....))..))..))............))))).).)))))))))((((((........)))))) ( -35.30)
>consensus
GGAGUGGUAACUCAUCCCACAAUCCUGUCCUUCUGCUCUGGCCUAGCCGCUGGGUCAUUUGUCUCGCUGGCAAUCACUCCAUUGGAUGUGAUUACCACUCGUCUUUACAAUCAGGGAGUU
.((((((((((((((((.................((....))...((((.((((.(....).)))).))))............))))).))))))))))).................... (-30.85 = -31.35 +   0.50)

alignment

secondary structure

dotplot

Window 2

Location	9,683,826 – 9,683,946
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	93.33
Mean single sequence MFE	-42.26
Consensus MFE	-36.83
Energy contribution	-37.52
Covariance contribution	0.69
Combinations/Pair	1.12
Mean z-score	-1.40
Structure conservation index	0.87
SVM decision value	-0.05
SVM RNA-class probability	0.506732
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9683826 120 + 20766785
GCUUAGCCGCUGGGUCAUUUGUCUCGCUGGCAAUCACUCCAUUGGAUGUGGUUACCACUCGUCUUUACAAUCAGGGAGUUGAUGCCCAAGGUCGUGGCAUUUACUACAGGGGCUGGUUGG
..((((((.((((((.(..((((.((((((((.(((((((.((((.(((((..((.....))..))))).)))))))).)))))))...)).)).))))..)))).))).)))))).... ( -41.60)
>DroSim_CAF1 6310 120 + 1
GCUUAGCCGCUGGUUCAUUUGUCUCGUUGGCAAUCACUCCAUUGGAUGUGGUUACCACUCGUCUUUACAACCAGGGAGUUGAUGCGCAAGGUCGGGGCAUUUACUACAGGGGCUGGUUGG
..((((((.(((.......(((((((((((((.(((((((.((((.(((((..((.....))..))))).)))))))).)))))).)))...))))))).......))).)))))).... ( -44.14)
>DroEre_CAF1 6380 120 + 1
GCCUAGCCGCUGGGUCAUUUGUGUCGCUGGUAAUCACUCCAUUGGAUGUGAUUACCACUCGUCUUUACAAUCAGGGAGUUGAUGCCCAAGGUCGGGGCAUUUAUUACAGGAGCUGGUCGG
(.(((((..(((......(((((.((.(((((((((((((...))).))))))))))..))....)))))......(((.(((((((.......))))))).))).)))..))))).).. ( -40.50)
>DroYak_CAF1 6353 120 + 1
GCCUAGCCGCUGGCUCAUUUGUGUCGCUGGCAAUCACUCCAUUGGAUGUGAUUACCACUCGACUUUACAAUCAGGGAGUUGAUGCCCAAGGUCGGGGCAUUUACUACAGAAGCUGGUUGG
..(((((..(((.(((..((((((((.(((.(((((((((...))).)))))).)))..))))...))))...)))(((.(((((((.......))))))).))).)))..))))).... ( -42.80)
>consensus
GCCUAGCCGCUGGGUCAUUUGUCUCGCUGGCAAUCACUCCAUUGGAUGUGAUUACCACUCGUCUUUACAAUCAGGGAGUUGAUGCCCAAGGUCGGGGCAUUUACUACAGGAGCUGGUUGG
..((((((.(((.......(((((((((((((.(((((((.((((.(((((..((.....))..))))).)))))))).)))))))...)).))))))).......))).)))))).... (-36.83 = -37.52 +   0.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:57 2006