Locus 462

Sequence ID	3L_DroMel_CAF1
Location	1,334,121 – 1,334,234
Length	113
Max. P	0.838328

overview

Window 8

Location	1,334,121 – 1,334,234
Length	113
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	73.27
Mean single sequence MFE	-24.48
Consensus MFE	-9.86
Energy contribution	-10.26
Covariance contribution	0.40
Combinations/Pair	1.25
Mean z-score	-1.89
Structure conservation index	0.40
SVM decision value	0.63
SVM RNA-class probability	0.804692
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1334121 113 + 23771897
UAUCGAAUAUUUGAGCUUGC-------GAAAUACUAUCGGUAUUUGCAGUGCGAUACCGAGUGAUAGUUCGAUUGUACAUCACUAUAUUGAUCGCAUUACAUAUUAUAUUCUCUUAUGGU
....((((((.((.....((-------.((((((.....))))))))((((((((....((((((.((........))))))))......)))))))).))....))))))......... ( -26.90)
>DroSec_CAF1 6286 98 + 1
UAUCGAAUAUUUGAGCUUGC-------AAAAUACUAUCGGUAUAUGCAGUGCGAUACCAAGUGAUAGUUCGAUUGU---------------UCGCAUUAAAUAUUAUAUUCCCUUACGGC
.....(((((((((((..((-------((...(((((((((((.(((...))))))))....))))))....))))---------------..)).)))))))))............... ( -21.70)
>DroSim_CAF1 6323 98 + 1
UAUCGAAUAUUUGAGCUUGC-------AAAAUACUAUCGGUAUAUGCAGUGCGAUACCAAGUGAUAGUUCGAUUGU---------------UCGCAUUAAAUAUUAUAUUCGCUUACGGC
.....(((((((((((..((-------((...(((((((((((.(((...))))))))....))))))....))))---------------..)).)))))))))............... ( -21.70)
>DroEre_CAF1 6462 110 + 1
UAUCGAGUAUUUGAGCUUGCUAGUGAAAACACAUUAUCGGUAUUUUCAGAUCGAUAUCAAUCGAUAGCUCGAUUGCACAUCACUAUAAUAAUCGCAUUAAUUAUCG--AUAU--------
((((((....(((((((((.((((((........(((((((........))))))).(((((((....)))))))....))))))))).....)).))))...)))--))).-------- ( -25.30)
>DroYak_CAF1 6480 111 + 1
UAUCGAAUAUUUGAGCUUGC-------AAAACACUAUCGGUAUCUUCGGUCCGAUACUGAGCGAUAGCUCGAUUGCACAUCACUAUAUUAUUGCCAUUAAAUAUUA--UUCUUUUAUGGU
.....(((((.(((...(((-------((.....((((((...(....).)))))).(((((....))))).)))))..)))..)))))...(((((.(((.....--...))).))))) ( -26.80)
>consensus
UAUCGAAUAUUUGAGCUUGC_______AAAAUACUAUCGGUAUAUGCAGUGCGAUACCAAGUGAUAGUUCGAUUGUACAUCACUAUA_U__UCGCAUUAAAUAUUAUAUUCUCUUACGGC
.....(((((((((((......................((((((........))))))...(((....)))......................)).)))))))))............... ( -9.86 = -10.26 +   0.40)

alignment

secondary structure

dotplot

Window 9

Location	1,334,121 – 1,334,234
Length	113
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	73.27
Mean single sequence MFE	-23.06
Consensus MFE	-7.42
Energy contribution	-7.78
Covariance contribution	0.36
Combinations/Pair	1.06
Mean z-score	-1.90
Structure conservation index	0.32
SVM decision value	0.74
SVM RNA-class probability	0.838328
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1334121 113 - 23771897
ACCAUAAGAGAAUAUAAUAUGUAAUGCGAUCAAUAUAGUGAUGUACAAUCGAACUAUCACUCGGUAUCGCACUGCAAAUACCGAUAGUAUUUC-------GCAAGCUCAAAUAUUCGAUA
.........((((((.....((..(((((..(((((.(((((((........)).)))))(((((((.((...))..)))))))..)))))))-------))).))....)))))).... ( -23.60)
>DroSec_CAF1 6286 98 - 1
GCCGUAAGGGAAUAUAAUAUUUAAUGCGA---------------ACAAUCGAACUAUCACUUGGUAUCGCACUGCAUAUACCGAUAGUAUUUU-------GCAAGCUCAAAUAUUCGAUA
.((....))((((((.........(((((---------------...(((((........))))).))))).((((.((((.....))))..)-------))).......)))))).... ( -20.10)
>DroSim_CAF1 6323 98 - 1
GCCGUAAGCGAAUAUAAUAUUUAAUGCGA---------------ACAAUCGAACUAUCACUUGGUAUCGCACUGCAUAUACCGAUAGUAUUUU-------GCAAGCUCAAAUAUUCGAUA
........(((((((.........(((((---------------...(((((........))))).))))).((((.((((.....))))..)-------))).......)))))))... ( -18.70)
>DroEre_CAF1 6462 110 - 1
--------AUAU--CGAUAAUUAAUGCGAUUAUUAUAGUGAUGUGCAAUCGAGCUAUCGAUUGAUAUCGAUCUGAAAAUACCGAUAAUGUGUUUUCACUAGCAAGCUCAAAUACUCGAUA
--------.(((--(((.......(((((((((....))))).))))...(((((((((((....)))))).(((((((((.......)))))))))......)))))......)))))) ( -28.90)
>DroYak_CAF1 6480 111 - 1
ACCAUAAAAGAA--UAAUAUUUAAUGGCAAUAAUAUAGUGAUGUGCAAUCGAGCUAUCGCUCAGUAUCGGACCGAAGAUACCGAUAGUGUUUU-------GCAAGCUCAAAUAUUCGAUA
.((((.(((...--.....))).))))....(((((..(((..(((((....(((((((....(((((........))))))))))))...))-------)))...))).)))))..... ( -24.00)
>consensus
ACCAUAAGAGAAUAUAAUAUUUAAUGCGA__A_UAUAGUGAUGUACAAUCGAACUAUCACUUGGUAUCGCACUGCAAAUACCGAUAGUAUUUU_______GCAAGCUCAAAUAUUCGAUA
...............................................(((((((((((....(((((..........)))))))))))............(....)........))))). ( -7.42 =  -7.78 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:29 2006