Locus 6365

Sequence ID 2R_DroMel_CAF1
Location 19,946,950 – 19,947,081
Length 131
Max. P 0.995172
window10166 window10167

overview

Window 6

Location 19,946,950 – 19,947,042
Length 92
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.03
Mean single sequence MFE -23.93
Consensus MFE -16.94
Energy contribution -16.80
Covariance contribution -0.14
Combinations/Pair 1.06
Mean z-score -1.43
Structure conservation index 0.71
SVM decision value 0.39
SVM RNA-class probability 0.716274
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19946950 92 + 20766785
GCU-----CUUCCUGGCCCUUUCAGGUCCCCUAACAAUUUGUACGCCUCAGUGCGUGCGCAUUUCUGGGCACUUAAGUUUCUACAUAGA------AG--------------CAUCC---C
(((-----(..(((((.....)))))..............((((((......))))))........))))......((((((....)))------))--------------)....---. ( -23.50)
>DroSec_CAF1 30005 89 + 1
GCU-----CCUCUUGGCCCUUUCAGGUCCCCUAACAAUUUGUACGCCUCAGUGCGUGCGCAUUUCUGGGCACUUAAGUUUCUACAUAGA------AG--------------CAU------
(((-----......)))......((((.(((....(((.(((((((......))))))).)))...))).))))..((((((....)))------))--------------)..------ ( -23.00)
>DroSim_CAF1 32265 92 + 1
GCU-----CCUCCUGGCCCUUUCAGGUCCCCUAACAAUUUGUACGCCUCAGUGCGUGCGCAUUUCUGGGCACUUAAGUUUCUACAUAGA------AG--------------CAUAC---C
(((-----(..(((((.....)))))..............((((((......))))))........))))......((((((....)))------))--------------)....---. ( -23.10)
>DroEre_CAF1 29064 91 + 1
GCU-----CUUCCUGGC-CUUUCAGGUCCCCUAACAAUUUGUACGCCUCAGUGCGUGCGCAUUUCUGGGCACUUAAGUUUCUACAUAGA------AG--------------CAUCC---C
(((-----(..(((((.-...)))))..............((((((......))))))........))))......((((((....)))------))--------------)....---. ( -23.50)
>DroWil_CAF1 28415 112 + 1
GCU-----CUUCAU---CUUGCCAGGUCCCCUAACAAUUUGUACGCCUCAGUGCGUACGCAUUUCUGGGCACUUAAGUUUCUAUAUAGCCUACGAAACGGCGGCAACUCCGCAUCCUUCG
...-----......---.(((((((((.(((....(((.(((((((......))))))).)))...))).)))).............(((........)))))))).............. ( -28.40)
>DroAna_CAF1 28820 93 + 1
UCGGCUAGCUUCGCCGUUCGUACAGGUCCCCUAACAAUUUGUACGCCUCAGUGCGUGCGCAUUUCUGGGCACUUAAGUUUCUAUAUAAU------AG--------------CU-------
.((((.......)))).......((((.(((....(((.(((((((......))))))).)))...))).))))...............------..--------------..------- ( -22.10)
>consensus
GCU_____CUUCCUGGCCCUUUCAGGUCCCCUAACAAUUUGUACGCCUCAGUGCGUGCGCAUUUCUGGGCACUUAAGUUUCUACAUAGA______AG______________CAUCC___C
.......................((((.(((....(((.(((((((......))))))).)))...))).)))).............................................. (-16.94 = -16.80 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 19,946,985 – 19,947,081
Length 96
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 73.89
Mean single sequence MFE -20.19
Consensus MFE -15.62
Energy contribution -16.02
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.09
Structure conservation index 0.77
SVM decision value 2.55
SVM RNA-class probability 0.995172
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19946985 96 + 20766785
GUACGCCUCAGUGCGUGCGCAUUUCUGGGCACUUAAGUUUCUACAUAGAAGCAUCCCAUUCCCAUGCUCAUGCCCAUGCCCUCACCCUCACUCCAA
((((((......))))))(((....((((((.....((((((....))))))....(((....)))....)))))))))................. ( -24.20)
>DroSec_CAF1 30040 78 + 1
GUACGCCUCAGUGCGUGCGCAUUUCUGGGCACUUAAGUUUCUACAUAGAAGCAU-----------------UCCCAUGCCCUCAUCCUGUC-CCAU
((((((......))))))(((.....(((((.....((((((....))))))..-----------------.....)))))......))).-.... ( -21.10)
>DroSim_CAF1 32300 95 + 1
GUACGCCUCAGUGCGUGCGCAUUUCUGGGCACUUAAGUUUCUACAUAGAAGCAUACCAUUCCCAUGCCCAUGCCCAUGCCCUCAUCCUGUC-CCAU
((((((......))))))(((....((((((.....((((((....))))))....(((....)))....)))))))))............-.... ( -24.20)
>DroEre_CAF1 29098 83 + 1
GUACGCCUCAGUGCGUGCGCAUUUCUGGGCACUUAAGUUUCUACAUAGAAGCAUCCCUUUCCCAUUCCCA------------CUCCCACUC-CCAU
((((((......)))))).......((((.......((((((....))))))........))))......------------.........-.... ( -17.46)
>DroAna_CAF1 28860 83 + 1
GUACGCCUCAGUGCGUGCGCAUUUCUGGGCACUUAAGUUUCUAUAUAAUAGCU----AUAGCCAGUCCCCCGCCAACUUUUUCAACC---------
((((((......))))))((....((((((......))..(((((.......)----))))))))......))..............--------- ( -14.00)
>consensus
GUACGCCUCAGUGCGUGCGCAUUUCUGGGCACUUAAGUUUCUACAUAGAAGCAU_CCAUUCCCAUGCCCA_GCCCAUGCCCUCACCCUCUC_CCAU
((((......))))((((.((....)).))))....((((((....))))))............................................ (-15.62 = -16.02 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:17 2006