Locus 2466

Sequence ID	2L_DroMel_CAF1
Location	6,766,944 – 6,767,054
Length	110
Max. P	0.978339

overview

Window 5

Location	6,766,944 – 6,767,054
Length	110
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	78.66
Mean single sequence MFE	-36.73
Consensus MFE	-20.76
Energy contribution	-20.04
Covariance contribution	-0.72
Combinations/Pair	1.10
Mean z-score	-2.58
Structure conservation index	0.57
SVM decision value	1.46
SVM RNA-class probability	0.956269
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6766944 110 + 22407834
UCUUGAGUACCUGCUCCGCCUGCGCCUGUAUGCUCUCAUCCAGAGUAUUCCAAAUGUUUUCAACGGACUCUGGA-ACGAUACG-GAUGAGAGCAUU-AGCUUUUGGG-GGAACG
............(.(((.((.....(((.((((((((((((......(((((...((((.....))))..))))-)......)-))))))))))))-)).....)).-))).). ( -36.10)
>DroVir_CAF1 46097 105 + 1
GCUUAAGUACCUGUUCCGCCUGUGCCUGUAUGCUCUCAUCCAGUGUAUUCCAAAUAUUCUCAACGGAUUCUGGA-AG-GUAUG-GAUGAGAGCUUUUAGU----G-G-UGCACA
......(((((......((....))(((...(((((((((((.....(((((...((((.....))))..))))-).-...))-)))))))))...))).----)-)-)))... ( -36.60)
>DroGri_CAF1 44299 105 + 1
GCUUCAACACCUGCUCCGCCUGUGCCUGUAUGCUCUCAUCCAGUGUAUUCCAAAUAUUCUCAACGGAUUCUGGA-AGAUGAUG-GAUGAGAGCUUU-AGU----A-G-GGCACA
((..........)).......((((((....(((((((((((.....(((((...((((.....))))..))))-).....))-)))))))))...-...----.-)-))))). ( -39.00)
>DroMoj_CAF1 44270 97 + 1
GUUUUAGCACCUGCUCCGCCUGCGCCUGAAUGCUCUCAUCCAGUGUAUUCCAUAUAUUCUCAACGGAUUCUGGA-AGUGUAUG-GAUGAGAGCUUU-AGU--------------
......(((...((...)).)))..(((((.(((((((((((.....(((((...((((.....))))..))))-).....))-))))))))))))-)).-------------- ( -33.30)
>DroAna_CAF1 33550 106 + 1
GCUUGAGUACCUUUUCCGCCUCCGCCUGAAUGCUCUCAUCCAGCGUAUUCCAAAUGUUUUCAACGGACUCUGGA-ACGGGACG-GAUGAGAGCAUU-AUCAU-UGAG-GAG---
..................((((......(((((((((((((..(.(.(((((...((((.....))))..))))-).).)..)-))))))))))))-.....-.)))-)..--- ( -35.90)
>DroPer_CAF1 38064 112 + 1
GCUUGAAGACCUCCUCCGCCUGGGCCUGUAUGCUCUCAUCCAGAGUGUUCCAAAUGUUCUCCACGGACUCUGGAAACGGUACGGGAUGAGAGCUUU-AGUCU-UGGAAGUGGCG
...............(((((..((.(((...((((((((((..(.(((((((...((((.....))))..))).)))).)...))))))))))..)-)).))-..)..)))).. ( -39.50)
>consensus
GCUUGAGUACCUGCUCCGCCUGCGCCUGUAUGCUCUCAUCCAGUGUAUUCCAAAUAUUCUCAACGGACUCUGGA_ACGGUACG_GAUGAGAGCUUU_AGU____G_G_GGCAC_
.................((....))......((((((((((.......((((...((((.....))))..))))........).)))))))))..................... (-20.76 = -20.04 +  -0.72)

alignment

secondary structure

dotplot

Window 6

Location	6,766,944 – 6,767,054
Length	110
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	78.66
Mean single sequence MFE	-36.14
Consensus MFE	-21.79
Energy contribution	-21.54
Covariance contribution	-0.25
Combinations/Pair	1.09
Mean z-score	-2.83
Structure conservation index	0.60
SVM decision value	1.81
SVM RNA-class probability	0.978339
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6766944 110 - 22407834
CGUUCC-CCCAAAAGCU-AAUGCUCUCAUC-CGUAUCGU-UCCAGAGUCCGUUGAAAACAUUUGGAAUACUCUGGAUGAGAGCAUACAGGCGCAGGCGGAGCAGGUACUCAAGA
.(((((-.((....(((-.(((((((((((-((....((-((((((.((....)).....))))))))....)))))))))))))...)))...)).)))))............ ( -42.00)
>DroVir_CAF1 46097 105 - 1
UGUGCA-C-C----ACUAAAAGCUCUCAUC-CAUAC-CU-UCCAGAAUCCGUUGAGAAUAUUUGGAAUACACUGGAUGAGAGCAUACAGGCACAGGCGGAACAGGUACUUAAGC
.((((.-(-(----.......(((((((((-((...-.(-((((((.((......))...))))))).....)))))))))))......((....)))).....))))...... ( -31.10)
>DroGri_CAF1 44299 105 - 1
UGUGCC-C-U----ACU-AAAGCUCUCAUC-CAUCAUCU-UCCAGAAUCCGUUGAGAAUAUUUGGAAUACACUGGAUGAGAGCAUACAGGCACAGGCGGAGCAGGUGUUGAAGC
((((((-.-.----...-...(((((((((-((.....(-((((((.((......))...))))))).....))))))))))).....)))))).((..(((....)))...)) ( -33.92)
>DroMoj_CAF1 44270 97 - 1
--------------ACU-AAAGCUCUCAUC-CAUACACU-UCCAGAAUCCGUUGAGAAUAUAUGGAAUACACUGGAUGAGAGCAUUCAGGCGCAGGCGGAGCAGGUGCUAAAAC
--------------...-...(((((((((-((.....(-((((.(.((......)).)...))))).....))))))))))).....(((((..((...))..)))))..... ( -32.80)
>DroAna_CAF1 33550 106 - 1
---CUC-CUCA-AUGAU-AAUGCUCUCAUC-CGUCCCGU-UCCAGAGUCCGUUGAAAACAUUUGGAAUACGCUGGAUGAGAGCAUUCAGGCGGAGGCGGAAAAGGUACUCAAGC
---(.(-(((.-.(((.-.(((((((((((-((.(..((-((((((.((....)).....))))))))..).))))))))))))))))....)))).)................ ( -37.30)
>DroPer_CAF1 38064 112 - 1
CGCCACUUCCA-AGACU-AAAGCUCUCAUCCCGUACCGUUUCCAGAGUCCGUGGAGAACAUUUGGAACACUCUGGAUGAGAGCAUACAGGCCCAGGCGGAGGAGGUCUUCAAGC
.(((.(((((.-.....-...((((((((((.(....(((((((((.((......))...))))))).)).).))))))))))......((....))))))).)))........ ( -39.70)
>consensus
_GUCCC_C_C____ACU_AAAGCUCUCAUC_CAUACCCU_UCCAGAAUCCGUUGAGAACAUUUGGAAUACACUGGAUGAGAGCAUACAGGCGCAGGCGGAGCAGGUACUCAAGC
.....................(((((((((.((.......((((((((.(.....).)).))))))......)))))))))))......((....))................. (-21.79 = -21.54 +  -0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:36 2006