Locus 396

Sequence ID	2R_DroMel_CAF1
Location	2,374,154 – 2,374,295
Length	141
Max. P	0.879010

overview

Window 7

Location	2,374,154 – 2,374,255
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	87.23
Mean single sequence MFE	-27.21
Consensus MFE	-22.67
Energy contribution	-21.27
Covariance contribution	-1.40
Combinations/Pair	1.39
Mean z-score	-1.51
Structure conservation index	0.83
SVM decision value	0.24
SVM RNA-class probability	0.649284
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2374154 101 - 20766785
GGCCCCCUUAAUCAGUCACAUUUCCCUGCAAAUUGUCGUGUCAAACAUAGCGAAUUUAGUAAGAAAGUGAUGGGGGUCAUCGGACUUAAUUCGUUUUCGUA
(((((((.......(((((.((((..((((((((((..((.....))..)).))))).))).))))))))))))))))..((((.....))))........ ( -27.21)
>DroSec_CAF1 23559 101 - 1
GGCCCCCCUAAUCAGUCACAUUUCCCUGCAAAUUGUCGUGUCAAACAUAGCGAAUUUAGUUAGAAAGUGAUGGGGGUCAUCGGACAUAAUUCGUUUUCGUA
(((((((.......(((((.((((...(((((((((..((.....))..)).))))).))..))))))))))))))))..((((.....))))........ ( -26.41)
>DroSim_CAF1 23693 101 - 1
GGCCCCCCUAAUCAGUCACAUUUCCCUGCAAAUUGUCGUGUCAAACAUAGCGAAUUUAGUUAGAAAGUGAUGGGGGUCAUCGGACAUAAAUCGUUUUCGUA
(((((((.......(((((.((((...(((((((((..((.....))..)).))))).))..))))))))))))))))..((((.((.....)).)))).. ( -26.31)
>DroEre_CAF1 23174 100 - 1
GGCCUCCUAAA-CAGUCGCAUUUCCGUUCGAAUUCCCGUGUUAAACACAGCAAAUUGAUGGAGAAAGUGACGGGGGUCAUCGGACUAAAUUCGUUUUCGUA
(((((((....-..(((((.(((((((.(((.((.(.(((.....))).).)).))))))))))..))))))))))))..((((.....))))........ ( -27.20)
>DroYak_CAF1 22525 101 - 1
GGCCCCCUUAAUAAGUCACAUCUGCCUGCAAAUUCUUGUGUCAAACAUAGCGAAUUCUGUAAGAAAGUGAUGGGGGUCACCGAAAUUAAUUCGUUUUCGUA
(((((((.......(((((.(((...((((((((((((((.....))))).))))).)))))))..))))))))))))..(((((.........))))).. ( -28.91)
>consensus
GGCCCCCUUAAUCAGUCACAUUUCCCUGCAAAUUGUCGUGUCAAACAUAGCGAAUUUAGUAAGAAAGUGAUGGGGGUCAUCGGACUUAAUUCGUUUUCGUA
(((((((.......(((((.(((..(((.((.((((.(((.....))).)))).)))))..)))..))))))))))))..((((.....))))........ (-22.67 = -21.27 +  -1.40)

alignment

secondary structure

dotplot

Window 8

Location	2,374,175 – 2,374,295
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.92
Mean single sequence MFE	-32.69
Consensus MFE	-28.33
Energy contribution	-26.93
Covariance contribution	-1.40
Combinations/Pair	1.31
Mean z-score	-1.62
Structure conservation index	0.87
SVM decision value	0.91
SVM RNA-class probability	0.879010
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2374175 120 - 20766785
GACAAUAGCUGAUAGAAUCGAUACUGUUCAUCCUAGCUGAGGCCCCCUUAAUCAGUCACAUUUCCCUGCAAAUUGUCGUGUCAAACAUAGCGAAUUUAGUAAGAAAGUGAUGGGGGUCAU
.....((((((((.((((.......)))))))..))))).(((((((.......(((((.((((..((((((((((..((.....))..)).))))).))).)))))))))))))))).. ( -33.51)
>DroSec_CAF1 23580 120 - 1
GACAAUAGCUGAUAGAAUUGAUACUGUUCAUCCUAGCUGAGGCCCCCCUAAUCAGUCACAUUUCCCUGCAAAUUGUCGUGUCAAACAUAGCGAAUUUAGUUAGAAAGUGAUGGGGGUCAU
.....((((((((.((((.......)))))))..))))).(((((((.......(((((.((((...(((((((((..((.....))..)).))))).))..)))))))))))))))).. ( -33.51)
>DroSim_CAF1 23714 120 - 1
GACAAUAGCUGAUAGAAUUGAUACUGUUCAUCCUAGCUGAGGCCCCCCUAAUCAGUCACAUUUCCCUGCAAAUUGUCGUGUCAAACAUAGCGAAUUUAGUUAGAAAGUGAUGGGGGUCAU
.....((((((((.((((.......)))))))..))))).(((((((.......(((((.((((...(((((((((..((.....))..)).))))).))..)))))))))))))))).. ( -33.51)
>DroEre_CAF1 23195 119 - 1
GACAAUAGCUGAUAGAAUUGAUACCGUUCAUCCUGGCUGAGGCCUCCUAAA-CAGUCGCAUUUCCGUUCGAAUUCCCGUGUUAAACACAGCAAAUUGAUGGAGAAAGUGACGGGGGUCAU
.....((((((((.((((.......)))))))..))))).(((((((....-..(((((.(((((((.(((.((.(.(((.....))).).)).))))))))))..)))))))))))).. ( -33.60)
>DroYak_CAF1 22546 119 - 1
GACAAUAGCUGAUAGAAUUAAU-CCGUUCAUCCUAACUGAGGCCCCCUUAAUAAGUCACAUCUGCCUGCAAAUUCUUGUGUCAAACAUAGCGAAUUCUGUAAGAAAGUGAUGGGGGUCAC
.....(((..(((.((((....-..)))))))))).....(((((((.......(((((.(((...((((((((((((((.....))))).))))).)))))))..)))))))))))).. ( -29.31)
>consensus
GACAAUAGCUGAUAGAAUUGAUACUGUUCAUCCUAGCUGAGGCCCCCUUAAUCAGUCACAUUUCCCUGCAAAUUGUCGUGUCAAACAUAGCGAAUUUAGUAAGAAAGUGAUGGGGGUCAU
.....((((((((.((((.......)))))))..))))).(((((((.......(((((.(((..(((.((.((((.(((.....))).)))).)))))..)))..)))))))))))).. (-28.33 = -26.93 +  -1.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:30 2006