Locus 2223

Sequence ID	3R_DroMel_CAF1
Location	6,337,293 – 6,337,441
Length	148
Max. P	0.921251

overview

Window 0

Location	6,337,293 – 6,337,405
Length	112
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	84.04
Mean single sequence MFE	-24.83
Consensus MFE	-17.62
Energy contribution	-18.07
Covariance contribution	0.45
Combinations/Pair	1.13
Mean z-score	-1.89
Structure conservation index	0.71
SVM decision value	0.00
SVM RNA-class probability	0.535736
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6337293 112 - 27905053
GUUAAGAACUAAGUGCGGUGAGCCGUAAGGAUCGCCUCCCUUAAUUUUGCCAUCCAUUCGAACGCAAUUUCUAAUUAUGUGCAUUUUUUCUCUUUUUCCGUUCAUCCGCGGA
....((((..(((((((((((.((....)).)))))..........((((..((.....))..)))).............)))))).)))).....(((((......))))) ( -26.50)
>DroSec_CAF1 102070 106 - 1
GUUAAGAACUAAGUGCGGUGAGCCGUGAGGAUCGCCUCCCUUAAUUUUGCCAUCCAUUCGAACGCAAUUUCUAAUUAUGUGCAUUUUUGCUCUUUUUCCGUUCCUC------
.....((((.(((.(((((((.((....)).)))))...........((((((..(((.(((......))).))).))).))).....)).))).....))))...------ ( -23.00)
>DroSim_CAF1 115640 106 - 1
GUUAAGAACUAAGUGCGGUGAGCCGUGAGGAUCGCCUCCCUUAAUUUUGCCAUCCAUUCGAACGCAAUUUCUAAUUAUGUGCAUUUUUUCUCUUUUUCCGUUCCUC------
.....((((((((.(.(((((.((....)).))))).).))))....((((((..(((.(((......))).))).))).)))................))))...------ ( -22.80)
>DroEre_CAF1 113277 110 - 1
GUUAAGAACUAAGUGCGGUGAGCCGUGAGGAUCGCCUCGCUUAUUUUUGCCAUCCAUUCGAACGCAAUUUCUAAUUAUGUGCAUUUUUUCUCUUUUUCCGUUCUUCCGUU--
...((((((((((((.(((((.((....)).))))).))))))....((((((..(((.(((......))).))).))).)))................)))))).....-- ( -28.80)
>DroYak_CAF1 102681 109 - 1
GUUAAGAACUAAGUGCGGUGAGCCGUGAGGAUCGCCUCGCUUAUU-UUGCCAUCCAUUCGAACGCAAUUUCUAAUUAUGUGCAUUUUUUCUCUUUUUCCGUUUUUGCGCU--
((.((((((((((((.(((((.((....)).))))).))))))..-.((((((..(((.(((......))).))).))).)))................))))))))...-- ( -27.80)
>DroPer_CAF1 105609 98 - 1
AUUAAGAAUUAAGAGAGCUGAUCCA-----GUCAGCUCUCCUUCUUUCGCAAUCCUUUCGACCGCAAUUUCUAAUUAUGCGCAUUUUUUUUGUCUCUCUUCUC---------
.....(((..((((((((((((...-----))))))))).)))..)))((((..........((((...........))))........))))..........--------- ( -20.07)
>consensus
GUUAAGAACUAAGUGCGGUGAGCCGUGAGGAUCGCCUCCCUUAAUUUUGCCAUCCAUUCGAACGCAAUUUCUAAUUAUGUGCAUUUUUUCUCUUUUUCCGUUCCUC______
....((((..(((((((((((.((....)).)))))..........((((..((.....))..)))).............)))))).))))..................... (-17.62 = -18.07 +   0.45)

alignment

secondary structure

dotplot

Window 1

Location	6,337,332 – 6,337,441
Length	109
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	78.61
Mean single sequence MFE	-27.23
Consensus MFE	-14.34
Energy contribution	-15.53
Covariance contribution	1.20
Combinations/Pair	1.17
Mean z-score	-2.46
Structure conservation index	0.53
SVM decision value	1.14
SVM RNA-class probability	0.921251
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6337332 109 - 27905053
AAAAAAUCUCC-AUAACUAUGAAAUAGCGCUUAUCU---AGUUAAGAACUAAGUGCGGUGAGCCGUAAGGAUCGCCUCCCUUAAUUUUGCCAUCCAUUCGAACGCAAUUUCUA
...........-........(((((.((((((((((---.....)))..)))))))(((((.((....)).)))))...........(((..((.....))..)))))))).. ( -23.90)
>DroPse_CAF1 99302 104 - 1
GAAAAAUAUCC-AUAACUAUGAAAUGGCGCUGAUUU---AAUUAAGAAUUAAGAGAGCUGAUCCA-----GUCAGCUCUCCUUCUUUCGCAAUCCUUUCGACCGCAAUUUCUA
...........-........(((((.(((.(((...---.(((..(((..((((((((((((...-----))))))))).)))..)))..)))....)))..))).))))).. ( -25.30)
>DroEre_CAF1 113314 109 - 1
AAAAAAUCUCC-AUAACUAUGAAAUAGCGCUGAUCU---AGUUAAGAACUAAGUGCGGUGAGCCGUGAGGAUCGCCUCGCUUAUUUUUGCCAUCCAUUCGAACGCAAUUUCUA
...........-........(((((.(((.(((...---.....((((.((((((.(((((.((....)).))))).)))))).)))).........)))..))).))))).. ( -29.43)
>DroYak_CAF1 102718 108 - 1
AAAAAAUCUCC-AUAACUAUGAAAUAGCGCUGAUCU---AGUUAAGAACUAAGUGCGGUGAGCCGUGAGGAUCGCCUCGCUUAUU-UUGCCAUCCAUUCGAACGCAAUUUCUA
...........-........(((((.(((.(((...---......(((.((((((.(((((.((....)).))))).)))))).)-)).........)))..))).))))).. ( -29.27)
>DroAna_CAF1 104475 108 - 1
GAAAAAUAUCC-AUAACUAUGAAAUGGCGCUUAGUUCAAAGUUGAGAAUUAAGCGGGGAGAGCUGGGAGCAGCAACCCACUUGUUUUUGCA----CUUGAAACGCAAUUUCUA
...........-........(((((.(((((((((((........)))))))))(((....((((....))))..)))....(((((....----...))))))).))))).. ( -30.20)
>DroPer_CAF1 105639 105 - 1
GAAAAAUAACCGAUAACUAUGAAAUGGCGCUGAUUU---AAUUAAGAAUUAAGAGAGCUGAUCCA-----GUCAGCUCUCCUUCUUUCGCAAUCCUUUCGACCGCAAUUUCUA
....................(((((.(((.(((...---.(((..(((..((((((((((((...-----))))))))).)))..)))..)))....)))..))).))))).. ( -25.30)
>consensus
AAAAAAUAUCC_AUAACUAUGAAAUAGCGCUGAUCU___AGUUAAGAACUAAGUGCGGUGAGCCGUGAGGAUCACCUCGCUUAUUUUUGCAAUCCAUUCGAACGCAAUUUCUA
....................(((((.(((...............((((.((((((.(((((..........))))).)))))).))))..............))).))))).. (-14.34 = -15.53 +   1.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:15 2006