Locus 100

Sequence ID	4_DroMel_CAF1
Location	726,753 – 726,862
Length	109
Max. P	0.768671

overview

Window 5

Location	726,753 – 726,862
Length	109
Sequences	3
Columns	109
Reading direction	forward
Mean pairwise identity	90.52
Mean single sequence MFE	-22.94
Consensus MFE	-17.33
Energy contribution	-18.67
Covariance contribution	1.33
Combinations/Pair	1.00
Mean z-score	-2.33
Structure conservation index	0.76
SVM decision value	0.11
SVM RNA-class probability	0.589612
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 726753 109 + 1281640
ACUUUUAUCUCGCAAUAAAAUGAUAACCCAAAUACAUAGCUUAUGUUUUUGGGUUUCAGUUUAAUUAAAACAAUUAGGUAAUCCUGAUUUUUCAAUUCGUUGCAGGUAU
.....(((((.(((((....(((.((((((((.(((((...))))).)))))))))))((((.....))))(((((((....))))))).........)))))))))). ( -29.30)
>DroSec_CAF1 14746 109 + 1
GCUUUUAUCUUGCAAUAAAAUGAUAACCCACACACAUAGUUUAUGUUUUUGGGUUUCAAUUUAAUUAAAACAAUUCGGUAAUCCUUAGGUUUUAUUUCGAUGCAGGUAU
........((((((.((((.(((.((((((.(.(((((...))))).).))))))))).))))..((((((.....((....))....))))))......))))))... ( -23.40)
>DroSim_CAF1 3148 109 + 1
GCUUUUAUCUUGCAAUAAAAUGAUAACCCACACACAUAGUUUAUUUUUUUGGGUUUCAAUUUAAUUAAAACAAUUCGGUAAUCCUAAGGUUUUAUUUCGAUGCACGUAU
..........((((.((((.(((.((((((...................))))))))).))))..((((((.....((....))....))))))......))))..... ( -16.11)
>consensus
GCUUUUAUCUUGCAAUAAAAUGAUAACCCACACACAUAGUUUAUGUUUUUGGGUUUCAAUUUAAUUAAAACAAUUCGGUAAUCCUAAGGUUUUAUUUCGAUGCAGGUAU
.....(((((.(((.((((.(((.((((((...(((((...)))))...))))))))).))))..((((((.....((....))....))))))......)))))))). (-17.33 = -18.67 +   1.33)

alignment

secondary structure

dotplot

Window 6

Location	726,753 – 726,862
Length	109
Sequences	3
Columns	109
Reading direction	reverse
Mean pairwise identity	90.52
Mean single sequence MFE	-21.73
Consensus MFE	-18.74
Energy contribution	-18.97
Covariance contribution	0.23
Combinations/Pair	1.06
Mean z-score	-2.12
Structure conservation index	0.86
SVM decision value	0.52
SVM RNA-class probability	0.768671
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 726753 109 - 1281640
AUACCUGCAACGAAUUGAAAAAUCAGGAUUACCUAAUUGUUUUAAUUAAACUGAAACCCAAAAACAUAAGCUAUGUAUUUGGGUUAUCAUUUUAUUGCGAGAUAAAAGU
...(.(((((..((.(((....((((..(((..(((.....)))..))).))))((((((((.(((((...))))).)))))))).))).))..))))).)........ ( -24.70)
>DroSec_CAF1 14746 109 - 1
AUACCUGCAUCGAAAUAAAACCUAAGGAUUACCGAAUUGUUUUAAUUAAAUUGAAACCCAAAAACAUAAACUAUGUGUGUGGGUUAUCAUUUUAUUGCAAGAUAAAAGC
...(.((((......((((((....((....)).....))))))..((((.(((((((((...(((((.....))))).)))))).))).)))).)))).)........ ( -22.70)
>DroSim_CAF1 3148 109 - 1
AUACGUGCAUCGAAAUAAAACCUUAGGAUUACCGAAUUGUUUUAAUUAAAUUGAAACCCAAAAAAAUAAACUAUGUGUGUGGGUUAUCAUUUUAUUGCAAGAUAAAAGC
.....((((......((((((....((....)).....))))))..((((.(((((((((.....(((.....)))...)))))).))).)))).)))).......... ( -17.80)
>consensus
AUACCUGCAUCGAAAUAAAACCUAAGGAUUACCGAAUUGUUUUAAUUAAAUUGAAACCCAAAAACAUAAACUAUGUGUGUGGGUUAUCAUUUUAUUGCAAGAUAAAAGC
...(.((((......((((((....((....)).....))))))..((((.(((((((((...(((((...)))))...)))))).))).)))).)))).)........ (-18.74 = -18.97 +   0.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:36 2006