Locus 7950

Sequence ID	X_DroMel_CAF1
Location	19,826,060 – 19,826,232
Length	172
Max. P	0.994588

overview

Window 5

Location	19,826,060 – 19,826,152
Length	92
Sequences	4
Columns	92
Reading direction	reverse
Mean pairwise identity	88.41
Mean single sequence MFE	-32.55
Consensus MFE	-27.36
Energy contribution	-27.80
Covariance contribution	0.44
Combinations/Pair	1.13
Mean z-score	-1.91
Structure conservation index	0.84
SVM decision value	0.94
SVM RNA-class probability	0.886085
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19826060 92 - 22224390
UUCCGUUGUCAGGCAUUAAAUUGCUUGCCAGCGGGAAAGUCCGAAAUCGGCGCUUUAAGCGGCUUAAUGCUGGCGAAUGCGAAGUGUAUUCC
.(((((((.((((((......)))))).)))))))((((((((....))).)))))...((((.....))))..((((((.....)))))). ( -34.70)
>DroSec_CAF1 31850 92 - 1
UUCGGUUGUCAGGCAUUAUAUUGCUUGCCAGCGGGAAAGUCCGAAAGCGGCGCUUUAAGCGGCUUAAUGCCGGCGAAUGCGGAGUGUAUUCC
....((((.((((((......)))))).))))((((.(.((((....((.(((.....))(((.....)))).))....)))).)...)))) ( -32.80)
>DroSim_CAF1 30010 92 - 1
UUCCGUUGUCAGGCAUUAAAUUGCUUGCCAGCGGGAAAGUCCGAAAGCAGCGCUUUAAGCGGCUUAAUGCCGGCGACUGCGGAGUGUAUUCC
((((((((.((((((......)))))).))))))))..........(((((((......((((.....))))))).))))((((....)))) ( -36.90)
>DroEre_CAF1 22110 87 - 1
UGCCGUUGUCAGGCAUUAAAUUGCUUGCCAGCCG----GUCCGAAAGCGGCGCUUUAAACGGCUCUAUGUUUGCGAAUGCGGGGUGU-UUCA
.(((((((.((((((......)))))).).((((----...(....)))))......))))))......(((((....)))))....-.... ( -25.80)
>consensus
UUCCGUUGUCAGGCAUUAAAUUGCUUGCCAGCGGGAAAGUCCGAAAGCGGCGCUUUAAGCGGCUUAAUGCCGGCGAAUGCGGAGUGUAUUCC
((((((((.((((((......)))))).))))))))......(((....(((((((...((((.....))))((....))))))))).))). (-27.36 = -27.80 +   0.44)

alignment

secondary structure

dotplot

Window 6

Location	19,826,119 – 19,826,232
Length	113
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.88
Mean single sequence MFE	-27.97
Consensus MFE	-22.93
Energy contribution	-23.61
Covariance contribution	0.68
Combinations/Pair	1.07
Mean z-score	-2.55
Structure conservation index	0.82
SVM decision value	2.49
SVM RNA-class probability	0.994588
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19826119 113 + 22224390
CGCUGGCAAGCAAUUUAAUGCCUGACAAC-------GGAACCAAAUUAAAGAUGUCAAAUGAAAUUAAAUGCCCCAGUGACAAAUACAAAUGCCGCAGCUGACAAUUCAGUGGCAGCAAA
((((((...(((.((((((...(((((.(-------..............).)))))......))))))))).))))))...........(((.((.(((((....))))).)).))).. ( -28.24)
>DroSec_CAF1 31909 110 + 1
CGCUGGCAAGCAAUAUAAUGCCUGACAAC-------CGAACCAAAUUAAAGCUGUCAAAUGAAAUUAAAUGCCCCAGUGACAAAUACAAAUGCCGCAGCUGACAAUUCAGUGG---CAAA
((((((...(((...((((...(((((..-------................)))))......))))..))).))))))...........((((...(((((....)))))))---)).. ( -22.27)
>DroSim_CAF1 30069 113 + 1
CGCUGGCAAGCAAUUUAAUGCCUGACAAC-------GGAACCAAAUUAAAGCUGUCAAAUGAAAUUAAAUGCCCCAGUGACAAAUACAAAUGCCGCAGCUGACAAUUCAGUGGCAGCAAA
((((((...(((.((((((...(((((.(-------..............).)))))......))))))))).))))))...........(((.((.(((((....))))).)).))).. ( -28.24)
>DroEre_CAF1 22164 113 + 1
GGCUGGCAAGCAAUUUAAUGCCUGACAAC-------GGCACCAAAUUAAAGCUGUCAAAUUAAAUUAAAUGCCCCAGUGACAAAUACAAAUGCCGCAACUGACAACUCAGUGGCAGCAAA
.(((((...(((.((((((........((-------(((...........)))))........))))))))).)))))............(((.((.(((((....))))).)).))).. ( -27.89)
>DroYak_CAF1 23064 120 + 1
GGCUGGCAGGCAAUUUAAUGGCUGGCAAGCAAGCCUGCAACCAAAUUAAAGCUGUCAAAUGAAAUUAAAUGCCCCAGUGACAAAUACAAAUGCCGCAGCUGACAAUUCAGUGGCAGCAAA
.(((((..((((.((((((.((.(((......))).))................((....)).)))))))))))))))............(((.((.(((((....))))).)).))).. ( -33.20)
>consensus
CGCUGGCAAGCAAUUUAAUGCCUGACAAC_______GGAACCAAAUUAAAGCUGUCAAAUGAAAUUAAAUGCCCCAGUGACAAAUACAAAUGCCGCAGCUGACAAUUCAGUGGCAGCAAA
((((((...(((.((((((...(((((.........................)))))......))))))))).))))))...........(((.((.(((((....))))).)).))).. (-22.93 = -23.61 +   0.68)

alignment

secondary structure

dotplot

Window 7

Location	19,826,119 – 19,826,232
Length	113
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.88
Mean single sequence MFE	-32.73
Consensus MFE	-25.48
Energy contribution	-25.64
Covariance contribution	0.16
Combinations/Pair	1.10
Mean z-score	-2.16
Structure conservation index	0.78
SVM decision value	1.17
SVM RNA-class probability	0.925235
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19826119 113 - 22224390
UUUGCUGCCACUGAAUUGUCAGCUGCGGCAUUUGUAUUUGUCACUGGGGCAUUUAAUUUCAUUUGACAUCUUUAAUUUGGUUCC-------GUUGUCAGGCAUUAAAUUGCUUGCCAGCG
..((((((..((((....))))..))))))........(((((.((..(.......)..))..)))))...............(-------((((.((((((......)))))).))))) ( -31.50)
>DroSec_CAF1 31909 110 - 1
UUUG---CCACUGAAUUGUCAGCUGCGGCAUUUGUAUUUGUCACUGGGGCAUUUAAUUUCAUUUGACAGCUUUAAUUUGGUUCG-------GUUGUCAGGCAUUAUAUUGCUUGCCAGCG
....---..((..(((((..((((((((......((..((((.....))))..)).......))).))))).)))))..))...-------((((.((((((......)))))).)))). ( -29.02)
>DroSim_CAF1 30069 113 - 1
UUUGCUGCCACUGAAUUGUCAGCUGCGGCAUUUGUAUUUGUCACUGGGGCAUUUAAUUUCAUUUGACAGCUUUAAUUUGGUUCC-------GUUGUCAGGCAUUAAAUUGCUUGCCAGCG
..((((((..((((....))))..)))))).......((((((.((..(.......)..))..))))))..............(-------((((.((((((......)))))).))))) ( -32.00)
>DroEre_CAF1 22164 113 - 1
UUUGCUGCCACUGAGUUGUCAGUUGCGGCAUUUGUAUUUGUCACUGGGGCAUUUAAUUUAAUUUGACAGCUUUAAUUUGGUGCC-------GUUGUCAGGCAUUAAAUUGCUUGCCAGCC
..((((((.(((((....))))).)))))).................((((..(((((((((((((((((..............-------))))))))..)))))))))..)))).... ( -35.44)
>DroYak_CAF1 23064 120 - 1
UUUGCUGCCACUGAAUUGUCAGCUGCGGCAUUUGUAUUUGUCACUGGGGCAUUUAAUUUCAUUUGACAGCUUUAAUUUGGUUGCAGGCUUGCUUGCCAGCCAUUAAAUUGCCUGCCAGCC
..((((((..((((....))))..)))))).............((((((((((((((......((.(((((.......)))))))((((.(....).)))))))))).))))..)))).. ( -35.70)
>consensus
UUUGCUGCCACUGAAUUGUCAGCUGCGGCAUUUGUAUUUGUCACUGGGGCAUUUAAUUUCAUUUGACAGCUUUAAUUUGGUUCC_______GUUGUCAGGCAUUAAAUUGCUUGCCAGCG
.........((..(((((..((((((((......((..((((.....))))..)).......))).))))).)))))..))..........((((.((((((......)))))).)))). (-25.48 = -25.64 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:36 2006