Locus 7159

Sequence ID	2L_DroMel_CAF1
Location	20,039,209 – 20,039,346
Length	137
Max. P	0.998669

overview

Window 8

Location	20,039,209 – 20,039,321
Length	112
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	75.52
Mean single sequence MFE	-30.12
Consensus MFE	-10.94
Energy contribution	-10.22
Covariance contribution	-0.72
Combinations/Pair	1.33
Mean z-score	-2.88
Structure conservation index	0.36
SVM decision value	3.18
SVM RNA-class probability	0.998669
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20039209 112 + 22407834
UUUCUAUUGUUAAAAUGGUGCGAUCCG---ACAAAGUUGGUUAUACAAUGGCUGUCUUUGUGAUUGCCUUUUAAUUAAUGACUGGAAUAGUGUAAUUAAAAGUUG-----GACUAUUCCA
..((....((((((..((.((((((..---((((((.(((((((...))))))).))))))))))))))))))))....))..((((((((.((((.....))))-----.)))))))). ( -32.00)
>DroSec_CAF1 221539 112 + 1
UUUCUAUUGUUCAAAUGGUGCGAUCCG---ACAAAGUUGGUUAUACAAUAGCUGUCUUUGUGAUUGCCUUUUAAUUAAUGACUGGAAUGGUGUAAUUAAAAGUUG-----GACUGUUCUA
........((((((.....((((((..---((((((.(((((((...))))))).))))))))))))((((((((((...(((.....))).)))))))))))))-----)))....... ( -28.00)
>DroEre_CAF1 216493 100 + 1
UUUCUAUUGUU------------GCCG---ACAAAGUUAGUUACACAAUUGCAGUCUUUGUGAUUGCCUUUUAAUUAACGACUGCAAUAGUGUAAUUAAAAGUUG-----GACUGUUCUA
...........------------.(((---((....((((((((((.(((((((((....((((((.....))))))..))))))))).))))))))))..))))-----)......... ( -32.30)
>DroYak_CAF1 215254 112 + 1
UUUCUAUUGUUUAAAUGGUAUGCUCCU---ACAAAGUUAGUUACACAAUUGCUGUCUUUGUGAUUGCCUUUUAAUUAAUGACUGGAAUAGUGUAAUUAAAAGUGG-----GACUGUUCUA
...(((((.....))))).....((((---((....((((((((((.(((.(.(((....((((((.....))))))..))).).))).))))))))))..))))-----))........ ( -27.10)
>DroAna_CAF1 232136 120 + 1
UUGGCAUUGUCAAAUUGAGUUUUUCCGUAUAUGAAGGUGGUUUUUCAAUGGCUUUCAUUGCAAUUGUAGUUUAAUUAAUGCCCGGAAUGGAGCAAUUGGGGCGUGGUAAUGACUAUUGGA
(((((...)))))..........((((((.((((((((.(((....))).)))))))))))....((((((......((((((.((.((...)).)).))))))......)))))).))) ( -31.20)
>consensus
UUUCUAUUGUUAAAAUGGUGCGAUCCG___ACAAAGUUGGUUAUACAAUGGCUGUCUUUGUGAUUGCCUUUUAAUUAAUGACUGGAAUAGUGUAAUUAAAAGUUG_____GACUGUUCUA
.....................................(((((...((((.((.......)).)))).((((((((((...(((.....))).))))))))))........)))))..... (-10.94 = -10.22 +  -0.72)

alignment

secondary structure

dotplot

Window 9

Location	20,039,246 – 20,039,346
Length	100
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	74.63
Mean single sequence MFE	-23.76
Consensus MFE	-9.80
Energy contribution	-9.44
Covariance contribution	-0.36
Combinations/Pair	1.41
Mean z-score	-1.89
Structure conservation index	0.41
SVM decision value	0.48
SVM RNA-class probability	0.752225
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20039246 100 + 22407834
UUAUACAAUGGCUGUCUUUGUGAUUGCCUUUUAAUUAAUGACUGGAAUAGUGUAAUUAAAAGUUG-----GACUAUUCCAAUAC-------GACGAGUCAUGAAAACUGAAA--------
.......(((((((((...((.((((.........)))).))(((((((((.((((.....))))-----.)))))))))....-------))).))))))...........-------- ( -24.70)
>DroSec_CAF1 221576 100 + 1
UUAUACAAUAGCUGUCUUUGUGAUUGCCUUUUAAUUAAUGACUGGAAUGGUGUAAUUAAAAGUUG-----GACUGUUCUAACAG-------GACGAGUCAUAAAAACUGAAA--------
.............((.(((((((((..((((((((((...(((.....))).)))))))))).((-----..((((....))))-------..))))))))))).)).....-------- ( -21.60)
>DroEre_CAF1 216518 99 + 1
UUACACAAUUGCAGUCUUUGUGAUUGCCUUUUAAUUAACGACUGCAAUAGUGUAAUUAAAAGUUG-----GACUGUUCUAACGC-------GACGAAUCAUAA-AACUAAAU--------
((((((.(((((((((....((((((.....))))))..))))))))).))))))......((((-----((....))))))..-------............-........-------- ( -26.40)
>DroYak_CAF1 215291 100 + 1
UUACACAAUUGCUGUCUUUGUGAUUGCCUUUUAAUUAAUGACUGGAAUAGUGUAAUUAAAAGUGG-----GACUGUUCUAACAC-------GACGGGUCAUAAAAACUAAAU--------
((((((.(((.(.(((....((((((.....))))))..))).).))).))))))......((((-----..(((((.......-------))))).))))...........-------- ( -18.00)
>DroAna_CAF1 232176 120 + 1
UUUUUCAAUGGCUUUCAUUGCAAUUGUAGUUUAAUUAAUGCCCGGAAUGGAGCAAUUGGGGCGUGGUAAUGACUAUUGGAAGAGUAUUGAGUAUGGGUUAUAAAAACAUAAAGGUUUCAA
..(((((((((...((((((((((((.....))))).((((((.((.((...)).)).)))))).))))))))))))))))(((.(((...((((...........))))..)))))).. ( -28.10)
>consensus
UUAUACAAUGGCUGUCUUUGUGAUUGCCUUUUAAUUAAUGACUGGAAUAGUGUAAUUAAAAGUUG_____GACUGUUCUAACAC_______GACGAGUCAUAAAAACUAAAA________
.............((.(((((((((..((((((((((...(((.....))).))))))))))...........(((....)))............))))))))).))............. ( -9.80 =  -9.44 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:54 2006