Locus 6018

Sequence ID	2R_DroMel_CAF1
Location	18,917,940 – 18,918,031
Length	91
Max. P	0.582338

overview

Window 0

Location	18,917,940 – 18,918,031
Length	91
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	84.30
Mean single sequence MFE	-24.80
Consensus MFE	-17.50
Energy contribution	-18.22
Covariance contribution	0.72
Combinations/Pair	1.12
Mean z-score	-1.60
Structure conservation index	0.71
SVM decision value	-0.01
SVM RNA-class probability	0.530110
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18917940 91 + 20766785
ACGGCAAAUUACACAAAUUUUAUGUUGCCUACCUUUGGGCGCUCAAA---AGGCAACUUAAUAAGCACAAGUGUGUGCGGUUUCCCA-------GUACGUC
..((.((((..((((.((((......(((((....)))))(((...(---((....)))....)))..)))).))))..)))).)).-------....... ( -23.00)
>DroSec_CAF1 17139 94 + 1
UCUUCAAAUUACACAAAUUUUAUGUUGCCUACCUUCGGGCGCUCAAAAGAAGGCAACUUAAUAAGCACAAGUGUGUGUGGUUUCCCA-------GUACGUC
.....(((((((((.....(((.(((((((.((....))...((....))))))))).)))...(((....))))))))))))....-------....... ( -22.60)
>DroSim_CAF1 20203 94 + 1
UCGGCAAAUUACACAAAUUUUAUGUUGCCUACCUUCGGGCGCUCAAAAGAAGGCAACUUAAUAAGCACAAGUGUGUGUGGUUUCCCA-------GUACGUC
..((.(((((((((.....(((.(((((((.((....))...((....))))))))).)))...(((....)))))))))))).)).-------....... ( -26.90)
>DroYak_CAF1 18384 93 + 1
-CAGCAAAUUACACAAAUUUUAUGUUGCCUGCCUUCGGGCGCUUAAAAGAAGGCAACUUAAUAAGCACAAGUGUGUGCGGUUUCUCU-------GCUCGUG
-.((((.............(((.((((((((((....))).((....)).))))))).)))...(((((....)))))........)-------))).... ( -26.70)
>DroAna_CAF1 17884 99 + 1
UCAACAAAUUGCUGAAAUUUUAUGCUGCCUACCUUUGGGCGUUCCAAAGAGGGCAACUUAAUAAGCA--AGAGUGUGCGGUUUCUCUUCUAUGGGUUCCUC
...(((..(((((......(((.(.(((((..((((((.....)))))).))))).).)))..))))--)...)))..((...(((......)))..)).. ( -24.80)
>consensus
UCAGCAAAUUACACAAAUUUUAUGUUGCCUACCUUCGGGCGCUCAAAAGAAGGCAACUUAAUAAGCACAAGUGUGUGCGGUUUCCCA_______GUACGUC
.....((((((((((...(((.((((((((......)))).........(((....)))....)))).)))..)))))))))).................. (-17.50 = -18.22 +   0.72)

alignment

secondary structure

dotplot

Window 1

Location	18,917,940 – 18,918,031
Length	91
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	84.30
Mean single sequence MFE	-25.54
Consensus MFE	-17.40
Energy contribution	-18.72
Covariance contribution	1.32
Combinations/Pair	1.18
Mean z-score	-1.74
Structure conservation index	0.68
SVM decision value	0.10
SVM RNA-class probability	0.582338
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18917940 91 - 20766785
GACGUAC-------UGGGAAACCGCACACACUUGUGCUUAUUAAGUUGCCU---UUUGAGCGCCCAAAGGUAGGCAACAUAAAAUUUGUGUAAUUUGCCGU
.......-------.((....))(((((....))))).........(((((---((.(.....).)))))))(((((((((.....)))))....)))).. ( -24.20)
>DroSec_CAF1 17139 94 - 1
GACGUAC-------UGGGAAACCACACACACUUGUGCUUAUUAAGUUGCCUUCUUUUGAGCGCCCGAAGGUAGGCAACAUAAAAUUUGUGUAAUUUGAAGA
...((..-------(((....))).))((((..((..((((...(((((((.((((((......)))))).))))))))))).))..)))).......... ( -26.60)
>DroSim_CAF1 20203 94 - 1
GACGUAC-------UGGGAAACCACACACACUUGUGCUUAUUAAGUUGCCUUCUUUUGAGCGCCCGAAGGUAGGCAACAUAAAAUUUGUGUAAUUUGCCGA
...((..-------(((....))).))((((..((..((((...(((((((.((((((......)))))).))))))))))).))..)))).......... ( -26.60)
>DroYak_CAF1 18384 93 - 1
CACGAGC-------AGAGAAACCGCACACACUUGUGCUUAUUAAGUUGCCUUCUUUUAAGCGCCCGAAGGCAGGCAACAUAAAAUUUGUGUAAUUUGCUG-
....(((-------(((...((.(((((....))))).......(((((((.(((((........))))).))))))).........))....)))))).- ( -26.90)
>DroAna_CAF1 17884 99 - 1
GAGGAACCCAUAGAAGAGAAACCGCACACUCU--UGCUUAUUAAGUUGCCCUCUUUGGAACGCCCAAAGGUAGGCAGCAUAAAAUUUCAGCAAUUUGUUGA
.............(((((..........))))--).........((((((.(((((((.....)))))))..))))))........(((((.....))))) ( -23.40)
>consensus
GACGUAC_______UGGGAAACCGCACACACUUGUGCUUAUUAAGUUGCCUUCUUUUGAGCGCCCGAAGGUAGGCAACAUAAAAUUUGUGUAAUUUGCCGA
...............((....))(((((((....))........(((((((.((((((......)))))).)))))))........))))).......... (-17.40 = -18.72 +   1.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:32 2006