Locus 35

Sequence ID	2L_DroMel_CAF1
Location	157,570 – 157,661
Length	91
Max. P	0.943219

overview

Window 2

Location	157,570 – 157,661
Length	91
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	72.83
Mean single sequence MFE	-22.22
Consensus MFE	-4.98
Energy contribution	-7.30
Covariance contribution	2.32
Combinations/Pair	1.25
Mean z-score	-1.63
Structure conservation index	0.22
SVM decision value	0.14
SVM RNA-class probability	0.601538
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 157570 91 + 22407834
--UUAU-UGAAACCCACGUUACUUCUUAGAU---------------UAGUUUGUUGUGCACAAAUUAUCUGAAUUCGCUAGGUGGAAG---------UCAAUAAAGUAUAAAAUGUGU
--((((-(((...((((.(......((((((---------------.(((((((.....))))))))))))).......).))))...---------))))))).............. ( -20.02)
>DroSec_CAF1 4016 106 + 1
--UUAU-UGAAACCCACGUUACUUCUUAAAUAUUUUAGGGAUCAGAUGGUUUCUUGUACACAAAUUAUCUGAAUUCGCGACGUAGGAG---------UCAAUAAAGUAUAAAAUGUGU
--((((-(((..((.((((..((((((((.....)))))))(((((((((((.........)))))))))))....)..)))).))..---------))))))).............. ( -26.60)
>DroSim_CAF1 3935 106 + 1
--UUAU-UGAAACCCACGUUACUUCUUAAAUAUUUUGGGGAUCAGAUGGUUUCUUGUACACAAAUUAUCUGAAUUCGUGACGUAGGAG---------UCAAUAAAGUAUAAAAUGUGU
--((((-(((..((.((((((((((((((.....)))))))(((((((((((.........)))))))))))....))))))).))..---------))))))).............. ( -29.80)
>DroEre_CAF1 3992 92 + 1
AGUUAGUUUAAACUCACUAUACUUCUU-----------------GAUGAUUUCUUGAACACAAAAUAAGUGAAUUCACUAUGUGGCAG---------UCAAUAAAGUAUAAAAUGUGU
.((.(((....))).))(((((((.((-----------------(((...........((((.....((((....)))).))))...)---------))))..)))))))........ ( -12.54)
>DroYak_CAF1 3948 117 + 1
ACUUAAUUUA-ACUCACGAUACUUUUUAAAUAGAUUGGGGAUUAGAUGAUUUCUUAUGCACAAAUCAUCUGAAGUCGCUAGGCAGGAGUCGCUAACGUCAAUAAAGUAUAAAUUGUUU
.........(-((.....(((((((.......(.((((.(((((((((((((.........))))))))))).(((....))).....)).)))))......))))))).....))). ( -22.12)
>consensus
__UUAU_UGAAACCCACGUUACUUCUUAAAUA__UU_GGGAU_AGAUGGUUUCUUGUACACAAAUUAUCUGAAUUCGCUACGUAGGAG_________UCAAUAAAGUAUAAAAUGUGU
..............((((((((((.................(((((((((((.........))))))))))).(((........)))................)))))....))))). ( -4.98 =  -7.30 +   2.32)

alignment

secondary structure

dotplot

Window 3

Location	157,570 – 157,661
Length	91
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	72.83
Mean single sequence MFE	-19.92
Consensus MFE	-2.62
Energy contribution	-3.18
Covariance contribution	0.56
Combinations/Pair	1.25
Mean z-score	-2.03
Structure conservation index	0.13
SVM decision value	1.33
SVM RNA-class probability	0.943219
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 157570 91 - 22407834
ACACAUUUUAUACUUUAUUGA---------CUUCCACCUAGCGAAUUCAGAUAAUUUGUGCACAACAAACUA---------------AUCUAAGAAGUAACGUGGGUUUCA-AUAA--
..............(((((((---------..(((((...((...((.((((..(((((.....)))))...---------------))))))...))...)))))..)))-))))-- ( -17.60)
>DroSec_CAF1 4016 106 - 1
ACACAUUUUAUACUUUAUUGA---------CUCCUACGUCGCGAAUUCAGAUAAUUUGUGUACAAGAAACCAUCUGAUCCCUAAAAUAUUUAAGAAGUAACGUGGGUUUCA-AUAA--
..............(((((((---------..(((((((..(....((((((..(((.(.....).)))..))))))...((..........))..)..)))))))..)))-))))-- ( -23.00)
>DroSim_CAF1 3935 106 - 1
ACACAUUUUAUACUUUAUUGA---------CUCCUACGUCACGAAUUCAGAUAAUUUGUGUACAAGAAACCAUCUGAUCCCCAAAAUAUUUAAGAAGUAACGUGGGUUUCA-AUAA--
..............(((((((---------..(((((((.((...((.(((((.((((......(((.....)))......)))).)))))))...)).)))))))..)))-))))-- ( -22.60)
>DroEre_CAF1 3992 92 - 1
ACACAUUUUAUACUUUAUUGA---------CUGCCACAUAGUGAAUUCACUUAUUUUGUGUUCAAGAAAUCAUC-----------------AAGAAGUAUAGUGAGUUUAAACUAACU
.(((....((((((((.((((---------....((((.((((....)))).....)))).....(....).))-----------------)))))))))))))((((......)))) ( -15.00)
>DroYak_CAF1 3948 117 - 1
AAACAAUUUAUACUUUAUUGACGUUAGCGACUCCUGCCUAGCGACUUCAGAUGAUUUGUGCAUAAGAAAUCAUCUAAUCCCCAAUCUAUUUAAAAAGUAUCGUGAGU-UAAAUUAAGU
....((((((((((((.((((((((((((.....)).)))))).....(((((((((.(.....).)))))))))..............)))))))))).(....).-)))))).... ( -21.40)
>consensus
ACACAUUUUAUACUUUAUUGA_________CUCCUACCUAGCGAAUUCAGAUAAUUUGUGUACAAGAAACCAUCU_AUCCC_AA__UAUUUAAGAAGUAACGUGGGUUUCA_AUAA__
..........((((((........................(((((((.....))))))).....(((.....)))..................))))))................... ( -2.62 =  -3.18 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:23:50 2006