Locus 8590

Sequence ID	X_DroMel_CAF1
Location	21,307,536 – 21,307,630
Length	94
Max. P	0.913263

overview

Window 3

Location	21,307,536 – 21,307,630
Length	94
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	86.17
Mean single sequence MFE	-31.16
Consensus MFE	-18.93
Energy contribution	-19.33
Covariance contribution	0.40
Combinations/Pair	1.22
Mean z-score	-3.21
Structure conservation index	0.61
SVM decision value	0.88
SVM RNA-class probability	0.873602
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21307536 94 + 22224390
ACAAUCUCCAUUGGCCCCCUGGAAGUGG-------GCAAGCGGCUAGAACGCUUUCGUCCUUGUUCUCCUUUUGCGG-CAAAACAGGACGCCCAAGGAAAUA
......(((.....((....))...(((-------(((((((.......)))))..(((((.(((..((......))-...))))))))))))).))).... ( -28.10)
>DroSec_CAF1 49007 93 + 1
ACAAACUCCAUUGGCCCCCUGAAGGUGG-------CCACUCUUCUGG-CCGCCUUCGUCCUUGUUCUCCUUCUGCGG-CAAAACAGGACGCCCAAGGAAAUA
......(((...(((.....((((((((-------(((......)))-))))))))(((((.(((..((......))-...)))))))))))...))).... ( -38.20)
>DroSim_CAF1 45422 93 + 1
ACAAACUCCAUUGGCCCCCUGAAGGUGG-------CCACUCUUCUGG-CCGCCUUCGUCCUUGUUCUCCUUCUGCGG-CAAAACAGGACGCCCAAGGAAAUA
......(((...(((.....((((((((-------(((......)))-))))))))(((((.(((..((......))-...)))))))))))...))).... ( -38.20)
>DroEre_CAF1 48044 94 + 1
ACAAUCUCCAUUGGCCCCCUGAAAGCGG-------CCACACUUCUAG-CCGCCUUCGUCCUUGUUCUCCCCCUGCUGCCAAAACAGGACGCCCAAGGAAAUA
......(((...(((.....(((.((((-------(..........)-)))).)))(((((.(((................)))))))))))...))).... ( -24.79)
>DroYak_CAF1 50603 101 + 1
ACAAUCUUCAUUGGCCCCCUAAAAGUGGCCACUGGCCACACUUCCAG-CCGUCUUCGUCCUUGUGCUCCUUCUGCUGCCAAAACAGGACGCCCAAGGAAAUA
............(((.........((((((...)))))).......)-)).......((((((.((((((..............)))).)).)))))).... ( -26.53)
>consensus
ACAAUCUCCAUUGGCCCCCUGAAAGUGG_______CCACACUUCUAG_CCGCCUUCGUCCUUGUUCUCCUUCUGCGG_CAAAACAGGACGCCCAAGGAAAUA
......(((...(((.....(((((((......................)))))))(((((.(((..((......))....)))))))))))...))).... (-18.93 = -19.33 +   0.40)

alignment

secondary structure

dotplot

Window 4

Location	21,307,536 – 21,307,630
Length	94
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	86.17
Mean single sequence MFE	-38.54
Consensus MFE	-24.88
Energy contribution	-26.28
Covariance contribution	1.40
Combinations/Pair	1.12
Mean z-score	-3.02
Structure conservation index	0.65
SVM decision value	1.09
SVM RNA-class probability	0.913263
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21307536 94 - 22224390
UAUUUCCUUGGGCGUCCUGUUUUG-CCGCAAAAGGAGAACAAGGACGAAAGCGUUCUAGCCGCUUGC-------CCACUUCCAGGGGGCCAAUGGAGAUUGU
.((((((((((.(((((((((((.-((......))))))).)))))..(((((.......))))).(-------((.......)))).)))).))))))... ( -34.00)
>DroSec_CAF1 49007 93 - 1
UAUUUCCUUGGGCGUCCUGUUUUG-CCGCAGAAGGAGAACAAGGACGAAGGCGG-CCAGAAGAGUGG-------CCACCUUCAGGGGGCCAAUGGAGUUUGU
...((((((((.(((((((((((.-((......))))))).)))))(((((.((-(((......)))-------)).)))))....).)))).))))..... ( -42.40)
>DroSim_CAF1 45422 93 - 1
UAUUUCCUUGGGCGUCCUGUUUUG-CCGCAGAAGGAGAACAAGGACGAAGGCGG-CCAGAAGAGUGG-------CCACCUUCAGGGGGCCAAUGGAGUUUGU
...((((((((.(((((((((((.-((......))))))).)))))(((((.((-(((......)))-------)).)))))....).)))).))))..... ( -42.40)
>DroEre_CAF1 48044 94 - 1
UAUUUCCUUGGGCGUCCUGUUUUGGCAGCAGGGGGAGAACAAGGACGAAGGCGG-CUAGAAGUGUGG-------CCGCUUUCAGGGGGCCAAUGGAGAUUGU
.((((((((((.(((((((((((..(......)..))))).)))))((((((((-(((......)))-------))))))))....).)))).))))))... ( -40.90)
>DroYak_CAF1 50603 101 - 1
UAUUUCCUUGGGCGUCCUGUUUUGGCAGCAGAAGGAGCACAAGGACGAAGACGG-CUGGAAGUGUGGCCAGUGGCCACUUUUAGGGGGCCAAUGAAGAUUGU
....((((((.((.((((..((((....)))))))))).)))))).......((-((.((((.((((((...))))))))))....))))............ ( -33.00)
>consensus
UAUUUCCUUGGGCGUCCUGUUUUG_CCGCAGAAGGAGAACAAGGACGAAGGCGG_CUAGAAGAGUGG_______CCACUUUCAGGGGGCCAAUGGAGAUUGU
.((((((((((.(((((((((((..((......))))))).))))).........((.((((.(((((.....))))))))).)).).)))).))))))... (-24.88 = -26.28 +   1.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:56 2006