Locus 3379

Sequence ID	2L_DroMel_CAF1
Location	9,793,445 – 9,793,538
Length	93
Max. P	0.975460

overview

Window 8

Location	9,793,445 – 9,793,538
Length	93
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	77.96
Mean single sequence MFE	-15.82
Consensus MFE	-11.70
Energy contribution	-11.70
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.05
Structure conservation index	0.74
SVM decision value	0.24
SVM RNA-class probability	0.650830
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9793445 93 + 22407834
AAAAUUAGUUAUUAUCGUCAAUGUGACGAAAGUUAUUUGUCUGCCAAUAAUUCUUAUUGACAACAGACUUCUUGCUAAUUUUUUU------------G--------CUUU----UUG
(((((((((.....(((((.....))))).........(((((.(((((.....)))))....))))).....)))))))))...------------.--------....----... ( -18.40)
>DroVir_CAF1 2730 109 + 1
ACAAUUAAUUAUUAUCGUCAAUGUGACGAAAGUUAUUUGUCUGUCAAUAAUACGUAUCGACAACAGACUUUUUUUUA-UG---UUGCUAAUUUGGGUUUUUUUUUGUUUU----UUG
((((..((..(((.....((((((((.(((((((...(((.((((.(((.....))).))))))))))))))..)))-))---)))........)))..))..))))...----... ( -14.82)
>DroPse_CAF1 2785 96 + 1
AUAAUUAAUUAUUAUCGUCAAUGUGACGAAAGUUAUUUGUCUGUCAAUAAUACUUAUCGACAACAGACUU-UUGCUAAUUUUUUG------------G--------GUUUCCUUUCU
.(((..(((((.((..(((...(((((....))))).(((.((((.(((.....))).))))))))))..-.)).)))))..)))------------.--------........... ( -14.70)
>DroEre_CAF1 5040 91 + 1
AAAAUUAGUUAUUAUCGUCAAUGUGACGAAAGUUAUUUGUCUGCCAAUAAUUCUUAUUGACAACAGACUUCUUGCUAAUUUUUUG------------G--------UUU------UU
(((((((((.....(((((.....))))).........(((((.(((((.....)))))....))))).....)))))))))...------------.--------...------.. ( -18.40)
>DroWil_CAF1 4626 84 + 1
ACAAUUAAUUAUUAUCGUCAAUGUGACGAAAGUUAUUUGUCUGUCAAU-------AUCGACAACAGACUUAGUUUUUUUUUUUUG------------G--------UUUU-----U-
.(((..((..((((..(((...(((((....))))).(((.((((...-------...)))))))))).)))).....))..)))------------.--------....-----.- ( -13.90)
>DroPer_CAF1 2785 96 + 1
AUAAUUAAUUAUUAUCGUCAAUGUGACGAAAGUUAUUUGUCUGUCAAUAAUACUUAUCGACAACAGACUU-UUGCUAAUUUUUUG------------G--------GUUUCCUUUCU
.(((..(((((.((..(((...(((((....))))).(((.((((.(((.....))).))))))))))..-.)).)))))..)))------------.--------........... ( -14.70)
>consensus
AAAAUUAAUUAUUAUCGUCAAUGUGACGAAAGUUAUUUGUCUGUCAAUAAUACUUAUCGACAACAGACUU_UUGCUAAUUUUUUG____________G________UUUU____UUU
..............(((((.....)))))(((((..(((((.................)))))..)))))............................................... (-11.70 = -11.70 +  -0.00)

alignment

secondary structure

dotplot

Window 9

Location	9,793,445 – 9,793,538
Length	93
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	77.96
Mean single sequence MFE	-17.63
Consensus MFE	-15.49
Energy contribution	-15.32
Covariance contribution	-0.18
Combinations/Pair	1.18
Mean z-score	-2.88
Structure conservation index	0.88
SVM decision value	1.75
SVM RNA-class probability	0.975460
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9793445 93 - 22407834
CAA----AAAG--------C------------AAAAAAAUUAGCAAGAAGUCUGUUGUCAAUAAGAAUUAUUGGCAGACAAAUAACUUUCGUCACAUUGACGAUAAUAACUAAUUUU
...----....--------.------------...((((((((......((((((...(((((.....))))))))))).........(((((.....)))))......)))))))) ( -19.70)
>DroVir_CAF1 2730 109 - 1
CAA----AAAACAAAAAAAAACCCAAAUUAGCAA---CA-UAAAAAAAAGUCUGUUGUCGAUACGUAUUAUUGACAGACAAAUAACUUUCGUCACAUUGACGAUAAUAAUUAAUUGU
...----..................((((((...---..-.........((((((((..(((....)))..)))))))).........(((((.....)))))......)))))).. ( -16.40)
>DroPse_CAF1 2785 96 - 1
AGAAAGGAAAC--------C------------CAAAAAAUUAGCAA-AAGUCUGUUGUCGAUAAGUAUUAUUGACAGACAAAUAACUUUCGUCACAUUGACGAUAAUAAUUAAUUAU
.....((....--------)------------)....((((((...-..((((((((..(((....)))..)))))))).........(((((.....)))))......)))))).. ( -17.50)
>DroEre_CAF1 5040 91 - 1
AA------AAA--------C------------CAAAAAAUUAGCAAGAAGUCUGUUGUCAAUAAGAAUUAUUGGCAGACAAAUAACUUUCGUCACAUUGACGAUAAUAACUAAUUUU
..------...--------.------------...((((((((......((((((...(((((.....))))))))))).........(((((.....)))))......)))))))) ( -19.70)
>DroWil_CAF1 4626 84 - 1
-A-----AAAA--------C------------CAAAAAAAAAAAACUAAGUCUGUUGUCGAU-------AUUGACAGACAAAUAACUUUCGUCACAUUGACGAUAAUAAUUAAUUGU
-.-----....--------.------------.................((((((((.....-------..)))))))).........(((((.....))))).............. ( -15.00)
>DroPer_CAF1 2785 96 - 1
AGAAAGGAAAC--------C------------CAAAAAAUUAGCAA-AAGUCUGUUGUCGAUAAGUAUUAUUGACAGACAAAUAACUUUCGUCACAUUGACGAUAAUAAUUAAUUAU
.....((....--------)------------)....((((((...-..((((((((..(((....)))..)))))))).........(((((.....)))))......)))))).. ( -17.50)
>consensus
AAA____AAAA________C____________CAAAAAAUUAGCAA_AAGUCUGUUGUCGAUAAGUAUUAUUGACAGACAAAUAACUUUCGUCACAUUGACGAUAAUAAUUAAUUAU
.....................................((((((......((((((...(((((.....))))))))))).........(((((.....)))))......)))))).. (-15.49 = -15.32 +  -0.18)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:02 2006