Locus 1289

Sequence ID	3L_DroMel_CAF1
Location	3,737,826 – 3,737,968
Length	142
Max. P	0.633223

overview

Window 7

Location	3,737,826 – 3,737,941
Length	115
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	85.97
Mean single sequence MFE	-32.55
Consensus MFE	-24.29
Energy contribution	-24.63
Covariance contribution	0.34
Combinations/Pair	1.33
Mean z-score	-2.53
Structure conservation index	0.75
SVM decision value	0.17
SVM RNA-class probability	0.619228
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3737826 115 - 23771897
UGUUCCAAGUUGGCAGGGUAGAGUUAGUAUCAACCCUGGCGAAAUGGCAGCUGUGGAAAUAGAAGUUAUGGAACUUCAGGGAAAUUCUCAAUUAAACGAGUAUGCCGUAGAAAAG
.(((((...(((.((((((.((.......)).)))))).))).(((((..((((....))))..))))))))))((((.((.....(((........)))....)).).)))... ( -34.50)
>DroSec_CAF1 132630 115 - 1
UGUUCCAAGUUGGCAGGGUAGAGUUAGUAUCAACCCUGGCGAAAUAGCAGCUGUGGAAAUAGAAGUUAUGGAACUUCAGGGAAAUUCUCAAUUAAACGAGUAUGCCAUAGAAAAG
.(((((...(((.((((((.((.......)).)))))).))).(((((..((((....))))..))))))))))(((..((.....(((........)))....))...)))... ( -34.40)
>DroSim_CAF1 128842 115 - 1
UGCUCCAAGUUGGCAGGGUAGAGUUAGUAUCAACCCUGGCGAAAUAGCAGCUGUGGAAAUAGAAGUUAUGGAACUUCAGGGAAAUUCUCAAUUAAACGAGUAUGCCAUAGAAAAG
((((.....(((.((((((.((.......)).)))))).)))...)))).((((((.....((((((....)))))).(((.....)))...............))))))..... ( -33.90)
>DroEre_CAF1 127870 115 - 1
UACUCCAAGUUGGCUGGGUAGAAUUAGUAUCAGCCCUGGCGAAAUAGCAGCUGUGGAAGUAGAAGUUAUGGAACUUCAGGGAAAUUCUCAAUUAAACGAGUAUGCCACAGAAAAG
.........((.(((((((.((.......)).)))).))).)).......((((((.....((((((....)))))).(((.....)))...............))))))..... ( -27.50)
>DroYak_CAF1 116613 115 - 1
UGUUCCAAGUUGGCAGGGUAGAAUUAGUAUUAACCCUGGCGAAAUAGCAGCUGUGGAAAUAGAAGUUAUGGAACUUCAGGGAAAUGCUCAACUAAACGAGUUUGCCGUAGAGAAG
.(((((...(((.((((((..(((....))).)))))).))).(((((..((((....))))..))))))))))((((.((....((((........))))...)).).)))... ( -34.20)
>DroAna_CAF1 130917 115 - 1
UAUUCCUAAUUGGCUGGGCAGAGUUAGUGUUAAUCCAGGUGAAGUGGCCGCUCUAGAAGUGGAAGUAACUCAGCUAUUAGGAAAUUCACAACUUAAGGAUUAUUCCAUAAGAAAA
..((((((((.(((((((................(((.......)))(((((.....)))))......)))))))))))))))........((((.(((....))).)))).... ( -30.80)
>consensus
UGUUCCAAGUUGGCAGGGUAGAGUUAGUAUCAACCCUGGCGAAAUAGCAGCUGUGGAAAUAGAAGUUAUGGAACUUCAGGGAAAUUCUCAAUUAAACGAGUAUGCCAUAGAAAAG
.(((((...(((.((((((.((.......)).)))))).))).(((((..((((....))))..)))))))))).....((.....(((........)))....))......... (-24.29 = -24.63 +   0.34)

alignment

secondary structure

dotplot

Window 8

Location	3,737,861 – 3,737,968
Length	107
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	81.68
Mean single sequence MFE	-33.25
Consensus MFE	-21.97
Energy contribution	-22.08
Covariance contribution	0.12
Combinations/Pair	1.39
Mean z-score	-1.70
Structure conservation index	0.66
SVM decision value	0.21
SVM RNA-class probability	0.633223
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3737861 107 - 23771897
-UGGAAAUCUUCCUGGCUUUAGUUUACAUGUUCCAAGUUGGCAGGGUAGAGUUAGUAUCAACCCUGGCGAAAUGGCAGCUGUGGAAAUAGAAGUUAUGGAACUUCAGG
-..(((...(((((((((((..((((((.((((((..(((.((((((.((.......)).)))))).)))..))).)))))))))....))))))).)))).)))... ( -36.10)
>DroPse_CAF1 176291 108 - 1
AGAGCAGUUUUCCCGGUUUCCGUUUGCAUAUUUCCAGUUGGUUGGGCCGCAUAACCAUCGGCGGGGGGGAAAAGUCCCUGGUGGAAGUGCUCGGCAUGGAGCUGGGGG
..........((((((((.(((((((..(((((((.(.((((((.......)))))).).((.(((((......))))).)))))))))..))).)))))))))))). ( -38.90)
>DroSec_CAF1 132665 107 - 1
-UGGAAAUUUUCCUGGCUUUAGUUUACAUGUUCCAAGUUGGCAGGGUAGAGUUAGUAUCAACCCUGGCGAAAUAGCAGCUGUGGAAAUAGAAGUUAUGGAACUUCAGG
-..........((((((....))......(((((...(((.((((((.((.......)).)))))).))).(((((..((((....))))..))))))))))..)))) ( -32.30)
>DroSim_CAF1 128877 107 - 1
-UGGAAAUUUUCCUGGCUUUAGUUUGCAUGCUCCAAGUUGGCAGGGUAGAGUUAGUAUCAACCCUGGCGAAAUAGCAGCUGUGGAAAUAGAAGUUAUGGAACUUCAGG
-..(((...(((((((((((.((((.(((((((....(((.((((((.((.......)).)))))).)))....).))).))).)))).))))))).)))).)))... ( -34.20)
>DroEre_CAF1 127905 107 - 1
-UGACAAUUUUCCUGGCUUUAGUUUGCAUACUCCAAGUUGGCUGGGUAGAAUUAGUAUCAGCCCUGGCGAAAUAGCAGCUGUGGAAGUAGAAGUUAUGGAACUUCAGG
-........(((((((((((..(((.((((((.(...((.(((((((.((.......)).)))).))).))...).)).)))).)))..))))))).))))....... ( -26.70)
>DroYak_CAF1 116648 107 - 1
-UGGUAAUUUUCCUGGCCUCAGCUUACAUGUUCCAAGUUGGCAGGGUAGAAUUAGUAUUAACCCUGGCGAAAUAGCAGCUGUGGAAAUAGAAGUUAUGGAACUUCAGG
-..........((((((....))......(((((...(((.((((((..(((....))).)))))).))).(((((..((((....))))..))))))))))..)))) ( -31.30)
>consensus
_UGGAAAUUUUCCUGGCUUUAGUUUACAUGUUCCAAGUUGGCAGGGUAGAAUUAGUAUCAACCCUGGCGAAAUAGCAGCUGUGGAAAUAGAAGUUAUGGAACUUCAGG
...........(((((.....(....)..(((((...(((.((((((.((.......)).)))))).))).(((((..((((....))))..)))))))))).))))) (-21.97 = -22.08 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:00 2006