Locus 2525

Sequence ID	2L_DroMel_CAF1
Location	6,983,286 – 6,983,435
Length	149
Max. P	0.781768

overview

Window 0

Location	6,983,286 – 6,983,395
Length	109
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	81.58
Mean single sequence MFE	-36.55
Consensus MFE	-29.50
Energy contribution	-29.42
Covariance contribution	-0.08
Combinations/Pair	1.10
Mean z-score	-1.59
Structure conservation index	0.81
SVM decision value	0.48
SVM RNA-class probability	0.752463
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6983286 109 - 22407834
UGCCACCGGCAAGACGCGACUGGUUACCGAAUGUCUGCGCGGUGGCAACUGGAGUGUCUCCUACAUACCCAAGUGUCAGGGUGAGUG-UGCCUACCUA-UUCCAU--AAU-UGG-
(((((((((((.((((....(((...)))..))))))).))))))))..(((((((.....(((((((((........))))..)))-))......))-))))).--...-...- ( -37.10)
>DroVir_CAF1 9677 110 - 1
UGCCACCGGCAAGACGCGUCUGGUUACGGAAUGUUUGCCCGGUGGCAACUGGAGUGUCUCCUACAUACCAAAGUGUCAGGGUAAGUCG---UUAGUUUCAUUCAUUCCAA-UGC-
(((((((((((((.....((((....))))...)))).)))))))))..(((((((..((((((((......)))).))))......(---.......)...))))))).-...- ( -37.20)
>DroGri_CAF1 10076 110 - 1
UGCCACCGGCAAGACGCGUCUGGUAACUGAAUGUUUGCCCGGUGGCAACUGGAGUGUCUCCUACAUACCAAAGUGUCAGGGUGAGUC-CGCAAAACACAAUUCAU--AUC-UGA-
(((((((((((((.....((........))...)))).)))))))))..(((.((((.....)))).)))..((((....(((....-)))...)))).......--...-...- ( -32.60)
>DroWil_CAF1 9589 108 - 1
UGCCACCGGCAAGACGCGUCUGGUAACGGAAUGUUUGCCUGGUGGCAACUGGAGUGUCUCCUACAUACCAAAGUGUCAGGGUAAGUA-AAAAAAUAAA---UCAG--AUUAUAU-
(((((((((((((.....((((....))))...)))))).))))))).((((..(((....(((.((((..........)))).)))-.....)))..---))))--.......- ( -33.80)
>DroMoj_CAF1 9868 113 - 1
UGCCACCGGCAAGACGCGUCUGGUUACGGAAUGUUUGCCUGGUGGCAACUGGAGUGUCUCCUACAUACCAAAGUGUCAGGGUAAGUCGCGCUUAGCUCAGUUCAAUUAAG-UGA-
.((((((((((((.....((((....))))...)))))).))))))(((((.(((...((((((((......)))).))))((((.....))))))))))))........-...- ( -38.20)
>DroAna_CAF1 9611 108 - 1
UGCCACCGGCAAGACGCGUCUGGUUACGGAAUGUUUGCGCGGUGGCAACUGGAGUGUCUCCUACAUACCGAAGUGUCAGGGUAAGUC-UCAAUUGAU---UUAUU--UUC-UGGC
(((((((((((((.....((((....))))...))))).))))))))..(((.((((.....)))).)))....(((((((((((((-......)))---)))).--.))-)))) ( -40.40)
>consensus
UGCCACCGGCAAGACGCGUCUGGUUACGGAAUGUUUGCCCGGUGGCAACUGGAGUGUCUCCUACAUACCAAAGUGUCAGGGUAAGUC_CGCAUAGCUA__UUCAU__AAC_UGA_
(((((((((((.((((..((((....)))).))))))).))))))))...((((...)))).((.((((..........)))).))............................. (-29.50 = -29.42 +  -0.08)

alignment

secondary structure

dotplot

Window 1

Location	6,983,315 – 6,983,435
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	95.67
Mean single sequence MFE	-43.62
Consensus MFE	-39.10
Energy contribution	-38.47
Covariance contribution	-0.64
Combinations/Pair	1.12
Mean z-score	-1.34
Structure conservation index	0.90
SVM decision value	0.56
SVM RNA-class probability	0.781768
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6983315 120 - 22407834
GUACGCUGGUCAGCUUUACAUGUCCCAUUGGACAGGAGUUUGCCACCGGCAAGACGCGACUGGUUACCGAAUGUCUGCGCGGUGGCAACUGGAGUGUCUCCUACAUACCCAAGUGUCAGG
.....((((...((((....(((((....)))))((((((.((((((((((.((((....(((...)))..))))))).)))))))))))((((...)))).......)))))).)))). ( -40.80)
>DroVir_CAF1 9707 120 - 1
GCACGCUGGUCAGCUUUACAUGUCCCAUUGGACAGGAGUUUGCCACCGGCAAGACGCGUCUGGUUACGGAAUGUUUGCCCGGUGGCAACUGGAGUGUCUCCUACAUACCAAAGUGUCAGG
((((.(..((.(((((....(((((....))))).)))))(((((((((((((.....((((....))))...)))).)))))))))))..).))))..(((((((......)))).))) ( -46.00)
>DroGri_CAF1 10106 120 - 1
GCACGCUGGUCAGCUUCACAUGUCCCAUUGGACAGGAGUUUGCCACCGGCAAGACGCGUCUGGUAACUGAAUGUUUGCCCGGUGGCAACUGGAGUGUCUCCUACAUACCAAAGUGUCAGG
((((.(..((.((((((...(((((....)))))))))))(((((((((((((.....((........))...)))).)))))))))))..).))))..(((((((......)))).))) ( -43.50)
>DroSim_CAF1 10439 120 - 1
GUACGCUGGUCAGCUUUACAUGUCCCAUUGGACAGGAGUUUGCCACCGGCAAGACGCGACUGGUUACUGAAUGUCUGCGCGGUGGCAACUGGAGUGUCUCCUACAUACCCAAGUGUCAGG
.....((((...((((....(((((....)))))((((((.((((((((((.((((.....(....)....))))))).)))))))))))((((...)))).......)))))).)))). ( -40.10)
>DroWil_CAF1 9617 120 - 1
GUACGCUGGUCAGCUUUACAUGUCCCAUUGGACAGGAGUUUGCCACCGGCAAGACGCGUCUGGUAACGGAAUGUUUGCCUGGUGGCAACUGGAGUGUCUCCUACAUACCAAAGUGUCAGG
.....((((...(((((...(((((....)))))((((((.((((((((((((.....((((....))))...)))))).))))))))))((((...))))......))))))).)))). ( -45.30)
>DroMoj_CAF1 9901 120 - 1
GCACGCUGGUCAGCUUUACAUGUCCCAUUGGACAAGAGUUUGCCACCGGCAAGACGCGUCUGGUUACGGAAUGUUUGCCUGGUGGCAACUGGAGUGUCUCCUACAUACCAAAGUGUCAGG
((((.(..((.((((((...(((((....)))))))))))(((((((((((((.....((((....))))...)))))).)))))))))..).))))..(((((((......)))).))) ( -46.00)
>consensus
GCACGCUGGUCAGCUUUACAUGUCCCAUUGGACAGGAGUUUGCCACCGGCAAGACGCGUCUGGUUACGGAAUGUUUGCCCGGUGGCAACUGGAGUGUCUCCUACAUACCAAAGUGUCAGG
.(((.(..((.((((((...(((((....)))))))))))(((((((((((.(((...((.(....).))..)))))).))))))))))..).)))...(((((((......)))).))) (-39.10 = -38.47 +  -0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:59 2006