Locus 2602

Sequence ID	X_DroMel_CAF1
Location	6,992,691 – 6,992,850
Length	159
Max. P	0.922196

overview

Window 1

Location	6,992,691 – 6,992,810
Length	119
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	99.44
Mean single sequence MFE	-46.40
Consensus MFE	-42.87
Energy contribution	-42.87
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.61
Structure conservation index	0.92
SVM decision value	1.15
SVM RNA-class probability	0.922196
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6992691 119 + 22224390
AGAGAUCACUCCCCGUGCCGC-UGCUAGCACGCUUCAUUAUCCCGGGGUUGCGAUUUGCCUCGACGACCUCGGGGCCCGGUCACUAAUCAAGUUGACCACUGGCCAGUCGCACUCGUACC
.(((....)))...((((.((-((((((............((((((((((((((......))).)))))))))))...(((((((.....)).))))).)))).)))).))))....... ( -46.20)
>DroSec_CAF1 15095 119 + 1
AGAGAUCACUCCCCGUGCCGC-UGCUAGCACGCUUCAUUAUCCCGGGGUUGCGAUUUGCCUCGACGACCUCGGGGCCCGGUCACUAAUCAAGUUGACCACUGGCCAGUCGCACUCGUACC
.(((....)))...((((.((-((((((............((((((((((((((......))).)))))))))))...(((((((.....)).))))).)))).)))).))))....... ( -46.20)
>DroSim_CAF1 205 120 + 1
AGAGAUCACUCCCCGUGCCGCUUGCUAGCACGCUUCAUUAUCCCGGGGUUGCGAUUUGCCUCGACGACCUCGGGGCCCGGUCACUAAUCAAGUUGACCACUGGCCAGUCGCACUCGUACC
.(((....)))...((((.(((.(((((............((((((((((((((......))).)))))))))))...(((((((.....)).))))).))))).))).))))....... ( -46.80)
>consensus
AGAGAUCACUCCCCGUGCCGC_UGCUAGCACGCUUCAUUAUCCCGGGGUUGCGAUUUGCCUCGACGACCUCGGGGCCCGGUCACUAAUCAAGUUGACCACUGGCCAGUCGCACUCGUACC
.(((....)))...((((.((..(((((............((((((((((((((......))).)))))))))))...(((((((.....)).))))).)))))..)).))))....... (-42.87 = -42.87 +   0.00)

alignment

secondary structure

dotplot

Window 2

Location	6,992,730 – 6,992,850
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	100.00
Mean single sequence MFE	-40.50
Consensus MFE	-40.50
Energy contribution	-40.50
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.50
Structure conservation index	1.00
SVM decision value	0.27
SVM RNA-class probability	0.660681
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6992730 120 + 22224390
UCCCGGGGUUGCGAUUUGCCUCGACGACCUCGGGGCCCGGUCACUAAUCAAGUUGACCACUGGCCAGUCGCACUCGUACCCCUAUGACCCAUGUUGACCAACCCCCUGCAUUUUCUGGGA
..((((((((((((......))).)))))))))((((.(((((((.....)).)))))...)))).((((((.(((((....)))))....)).)))).....(((..........))). ( -40.50)
>DroSec_CAF1 15134 120 + 1
UCCCGGGGUUGCGAUUUGCCUCGACGACCUCGGGGCCCGGUCACUAAUCAAGUUGACCACUGGCCAGUCGCACUCGUACCCCUAUGACCCAUGUUGACCAACCCCCUGCAUUUUCUGGGA
..((((((((((((......))).)))))))))((((.(((((((.....)).)))))...)))).((((((.(((((....)))))....)).)))).....(((..........))). ( -40.50)
>DroSim_CAF1 245 120 + 1
UCCCGGGGUUGCGAUUUGCCUCGACGACCUCGGGGCCCGGUCACUAAUCAAGUUGACCACUGGCCAGUCGCACUCGUACCCCUAUGACCCAUGUUGACCAACCCCCUGCAUUUUCUGGGA
..((((((((((((......))).)))))))))((((.(((((((.....)).)))))...)))).((((((.(((((....)))))....)).)))).....(((..........))). ( -40.50)
>consensus
UCCCGGGGUUGCGAUUUGCCUCGACGACCUCGGGGCCCGGUCACUAAUCAAGUUGACCACUGGCCAGUCGCACUCGUACCCCUAUGACCCAUGUUGACCAACCCCCUGCAUUUUCUGGGA
..((((((((((((......))).)))))))))((((.(((((((.....)).)))))...)))).((((((.(((((....)))))....)).)))).....(((..........))). (-40.50 = -40.50 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:46 2006