Locus 2924

Sequence ID	2R_DroMel_CAF1
Location	10,141,094 – 10,141,276
Length	182
Max. P	0.978584

overview

Window 9

Location	10,141,094 – 10,141,206
Length	112
Sequences	3
Columns	119
Reading direction	forward
Mean pairwise identity	89.71
Mean single sequence MFE	-33.15
Consensus MFE	-30.98
Energy contribution	-30.55
Covariance contribution	-0.43
Combinations/Pair	1.15
Mean z-score	-1.87
Structure conservation index	0.93
SVM decision value	0.87
SVM RNA-class probability	0.871588
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10141094 112 + 20766785
GGUUGCUCACGUAAUA------UAACUCUCUGA-AAGGGGAAUCCCUUUGAAGAUUCCACUCGCAGGACUCGAGCGCUCACUUUCCCCAUCCCGUGUCCUGCGAAGAGUAUUCAAAGGC
.(((((....))))).------....(((((..-..)))))...((((((((.((((...(((((((((.((....................)).))))))))).)))).)))))))). ( -37.75)
>DroSim_CAF1 6214 112 + 1
GGUUACUCACGUAAUA------UAACUCUCUGA-AAGGGGAAUCCCUUUGAAGAUUCCACUCGCAGGACUCGAGCGCUCACUUUCCCCAUCCCGUGUCCUGUGAAGAGUAUUCAAAGGC
.(((((....))))).------....(((((..-..)))))...((((((((.((((...(((((((((.((....................)).))))))))).)))).)))))))). ( -35.85)
>DroYak_CAF1 6239 119 + 1
GGUUAUUCACGUAAUACGAGUACAACUCUCUAAAAAGGGGAAUCCCUUUGAACAUUCCACUCGCAGGACUUGAGCGCUCACUUUCCCCAUUCUGUGUCCUGCUAAGAGCAUUCAAAGGC
...(((((.........)))))....(((((.....)))))...((((((((..(((.....(((((((..(((...............)))...)))))))...)))..)))))))). ( -25.86)
>consensus
GGUUACUCACGUAAUA______UAACUCUCUGA_AAGGGGAAUCCCUUUGAAGAUUCCACUCGCAGGACUCGAGCGCUCACUUUCCCCAUCCCGUGUCCUGCGAAGAGUAUUCAAAGGC
.(((((....)))))...........(((((.....)))))...((((((((.((((...(((((((((.((....................)).))))))))).)))).)))))))). (-30.98 = -30.55 +  -0.43)

alignment

secondary structure

dotplot

Window 0

Location	10,141,127 – 10,141,236
Length	109
Sequences	3
Columns	109
Reading direction	forward
Mean pairwise identity	95.11
Mean single sequence MFE	-30.47
Consensus MFE	-27.34
Energy contribution	-27.35
Covariance contribution	0.01
Combinations/Pair	1.11
Mean z-score	-2.52
Structure conservation index	0.90
SVM decision value	1.06
SVM RNA-class probability	0.908031
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10141127 109 + 20766785
AAUCCCUUUGAAGAUUCCACUCGCAGGACUCGAGCGCUCACUUUCCCCAUCCCGUGUCCUGCGAAGAGUAUUCAAAGGCAAACUUUGACCGCUUUUUGCCAGGACCUAC
..(((.((((((.((((...(((((((((.((....................)).))))))))).)))).))))))((((((............)))))).)))..... ( -32.55)
>DroSim_CAF1 6247 109 + 1
AAUCCCUUUGAAGAUUCCACUCGCAGGACUCGAGCGCUCACUUUCCCCAUCCCGUGUCCUGUGAAGAGUAUUCAAAGGCAAACUUUGACCGCUUUUUGCGAGGACCUAC
....((((((((.((((...(((((((((.((....................)).))))))))).)))).))))))))...........(((.....)))......... ( -31.55)
>DroYak_CAF1 6279 109 + 1
AAUCCCUUUGAACAUUCCACUCGCAGGACUUGAGCGCUCACUUUCCCCAUUCUGUGUCCUGCUAAGAGCAUUCAAAGGCAAACUUUGACCGCUUUUUGCCAGGACCUAC
......................((((((...(((......)))......))))))(((((((.((((((..((((((.....))))))..)))))).).)))))).... ( -27.30)
>consensus
AAUCCCUUUGAAGAUUCCACUCGCAGGACUCGAGCGCUCACUUUCCCCAUCCCGUGUCCUGCGAAGAGUAUUCAAAGGCAAACUUUGACCGCUUUUUGCCAGGACCUAC
....((((((((.((((...(((((((((.((....................)).))))))))).)))).))))))))..........((((.....))..))...... (-27.34 = -27.35 +   0.01)

alignment

secondary structure

dotplot

Window 1

Location	10,141,167 – 10,141,276
Length	109
Sequences	3
Columns	109
Reading direction	forward
Mean pairwise identity	93.27
Mean single sequence MFE	-33.73
Consensus MFE	-31.10
Energy contribution	-30.67
Covariance contribution	-0.43
Combinations/Pair	1.15
Mean z-score	-2.99
Structure conservation index	0.92
SVM decision value	1.82
SVM RNA-class probability	0.978584
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10141167 109 + 20766785
CUUUCCCCAUCCCGUGUCCUGCGAAGAGUAUUCAAAGGCAAACUUUGACCGCUUUUUGCCAGGACCUACACUGGCAGAGAUUUCUCUUUGUUGACAGGCACGCGACUUU
............((((((((((((((((...((((((.....))))))....((((((((((........))))))))))...)))))))....)))).)))))..... ( -37.90)
>DroSim_CAF1 6287 109 + 1
CUUUCCCCAUCCCGUGUCCUGUGAAGAGUAUUCAAAGGCAAACUUUGACCGCUUUUUGCGAGGACCUACACUAGCAGAGAUUUCUCUUUGUUGACAGGCACGCGACUUU
.........((.(((((((((..((((((..((((((.....))))))..))))))..).))))(((....(((((((((....)))))))))..))))))).)).... ( -34.60)
>DroYak_CAF1 6319 109 + 1
CUUUCCCCAUUCUGUGUCCUGCUAAGAGCAUUCAAAGGCAAACUUUGACCGCUUUUUGCCAGGACCUACACUGCCAGAGAUUUCGCUUUGUUGACAAUCACGCGACUUU
.........(((((.(((((((.((((((..((((((.....))))))..)))))).).)))))).........)))))...((((.(((....)))....)))).... ( -28.70)
>consensus
CUUUCCCCAUCCCGUGUCCUGCGAAGAGUAUUCAAAGGCAAACUUUGACCGCUUUUUGCCAGGACCUACACUGGCAGAGAUUUCUCUUUGUUGACAGGCACGCGACUUU
.........((.(((((((((((((((((..((((((.....))))))..))))))))).)))))......((((((((......))))))))......))).)).... (-31.10 = -30.67 +  -0.43)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:51 2006