Locus 2803

Sequence ID	2L_DroMel_CAF1
Location	7,957,960 – 7,958,065
Length	105
Max. P	0.966504

overview

Window 2

Location	7,957,960 – 7,958,065
Length	105
Sequences	4
Columns	116
Reading direction	forward
Mean pairwise identity	67.11
Mean single sequence MFE	-22.89
Consensus MFE	-8.46
Energy contribution	-13.46
Covariance contribution	5.00
Combinations/Pair	1.17
Mean z-score	-2.63
Structure conservation index	0.37
SVM decision value	0.67
SVM RNA-class probability	0.816413
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7957960 105 + 22407834
C---------AUCUGACAGCUAUCAAAAAUUUGAAAU--GUGUUCAUACAUUAUUUGGAAAUUUUGUUUAGCUGCAAGCUCAUUAUGAUAAAUAGAUACCAUUUAUAAUCGUUUGU
.---------......((((((.(((((.(((.((((--((((....))).))))).))).)))))..))))))(((((..(((((((..............))))))).))))). ( -21.74)
>DroSim_CAF1 129388 81 + 1
C---------AUCUGACAGCUAUC-------------------------AUUAUUUGGAAUUUUUGU-UAGCUGUCAGCUCAUUAUGAUAAAUAGAUACCAAUUAUAAUCGUUUGA
.---------..((((((((((.(-------------------------(..(........)..)).-))))))))))...((((((((............))))))))....... ( -17.60)
>DroEre_CAF1 131129 108 + 1
UAUCUUAGUAAUCCGGCAGCUAUCGAAAAUUUGAAAUUUGUGUUCA-------UUUUGAAUUUUUGU-UAGCUGUCAGAUCAAUAUGAUAAAUAUAUCUGAACAUUAAUCGUUUGU
((((.((...(((.((((((((.((((((((..((((........)-------)))..)))))))).-)))))))).)))...)).)))).........((((.......)))).. ( -28.20)
>DroYak_CAF1 134496 113 + 1
CAACUUAGUAAUCUGGCAGCUAUUAAAAAUUGAAAAU--GUGUUCAUACAUUAUAUUGAAUUUUUGU-UAGCUGUCAAAUCGUAAUGAUAAAAAUAACUGAAUAUUAAUCGUUUGC
....((((((.(((((((((((.((((((((.(((((--(((....))))))...)).)))))))).-))))))))).(((.....)))..........)).))))))........ ( -24.00)
>consensus
C_________AUCUGACAGCUAUCAAAAAUUUGAAAU__GUGUUCA___AUUAUUUGGAAUUUUUGU_UAGCUGUCAGAUCAUUAUGAUAAAUAGAUACCAAUAAUAAUCGUUUGU
............(((((((((..((((((((((((((...............))))))))))))))...)))))))))...................................... ( -8.46 = -13.46 +   5.00)

alignment

secondary structure

dotplot

Window 3

Location	7,957,960 – 7,958,065
Length	105
Sequences	4
Columns	116
Reading direction	reverse
Mean pairwise identity	67.11
Mean single sequence MFE	-19.56
Consensus MFE	-8.61
Energy contribution	-9.93
Covariance contribution	1.31
Combinations/Pair	1.23
Mean z-score	-2.45
Structure conservation index	0.44
SVM decision value	1.60
SVM RNA-class probability	0.966504
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7957960 105 - 22407834
ACAAACGAUUAUAAAUGGUAUCUAUUUAUCAUAAUGAGCUUGCAGCUAAACAAAAUUUCCAAAUAAUGUAUGAACAC--AUUUCAAAUUUUUGAUAGCUGUCAGAU---------G
..............((((((......))))))......((.(((((((...(((((((......(((((......))--)))..)))))))...))))))).))..---------. ( -17.20)
>DroSim_CAF1 129388 81 - 1
UCAAACGAUUAUAAUUGGUAUCUAUUUAUCAUAAUGAGCUGACAGCUA-ACAAAAAUUCCAAAUAAU-------------------------GAUAGCUGUCAGAU---------G
........((((...(((((......)))))..)))).((((((((((-.((..............)-------------------------).))))))))))..---------. ( -18.54)
>DroEre_CAF1 131129 108 - 1
ACAAACGAUUAAUGUUCAGAUAUAUUUAUCAUAUUGAUCUGACAGCUA-ACAAAAAUUCAAAA-------UGAACACAAAUUUCAAAUUUUCGAUAGCUGCCGGAUUACUAAGAUA
......(((.(((((......))))).)))....(((((((.((((((-.(.((((((..(((-------(........))))..)))))).).)))))).)))))))........ ( -22.90)
>DroYak_CAF1 134496 113 - 1
GCAAACGAUUAAUAUUCAGUUAUUUUUAUCAUUACGAUUUGACAGCUA-ACAAAAAUUCAAUAUAAUGUAUGAACAC--AUUUUCAAUUUUUAAUAGCUGCCAGAUUACUAAGUUG
...((((((.((((......))))...))).....((((((.((((((-..(((((((......(((((......))--)))...)))))))..)))))).)))))).....))). ( -19.60)
>consensus
ACAAACGAUUAAAAUUCAGAUAUAUUUAUCAUAAUGAGCUGACAGCUA_ACAAAAAUUCAAAAUAAU___UGAACAC__AUUUCAAAUUUUUGAUAGCUGCCAGAU_________G
...................................(((((((((((((..............................................)))))))))))))......... ( -8.61 =  -9.93 +   1.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:35 2006