Locus 7542

Sequence ID 3L_DroMel_CAF1
Location 20,250,274 – 20,250,424
Length 150
Max. P 0.951566
window12256 window12257

overview

Window 6

Location 20,250,274 – 20,250,367
Length 93
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 75.40
Mean single sequence MFE -12.83
Consensus MFE -8.96
Energy contribution -8.77
Covariance contribution -0.19
Combinations/Pair 1.56
Mean z-score -1.69
Structure conservation index 0.70
SVM decision value 1.41
SVM RNA-class probability 0.951566
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20250274 93 + 23771897
AAACA--CACAACACCACUGAAACCUGACCCAACACAUUUAAUUAUUAAUACUGCAAAGAUCCUGGUAAUGCCUCUAUGCAAGCGUUACCACGG----A
.....--.....................................................((((((((((((..........))))))))).))----) ( -14.30)
>DroSec_CAF1 2652 95 + 1
AAACACACACAACACCACUGAAACCCGCCCCAACACGUUUAAUUAAUAAUACUGCAAAGGUCCUGGUGAUGCCUCUAUGCAAGCAUUACCACGG----A
............................................................((((((((((((..........))))))))).))----) ( -14.70)
>DroSim_CAF1 2671 95 + 1
AAACACACACAACACCACUGAAACCCGCCCCAACACAUUUAAUUAAUAAUACUGCAAAGAUCCUGGUGGUGCCUCUAUGCAAGCAUUACCACGG----A
............................................................((((((((((((..........))))))))).))----) ( -14.30)
>DroEre_CAF1 2628 88 + 1
AAACA--CACAACACCAUUAAAAC-----CCCACACAUUUAAUUAAUACUAAUGCAAAGAUCCUGGUAAUGCCUCUAUGCAUGCGUUGCCACAG----A
.....--.................-----..................................(((((((((..........)))))))))...----. ( -10.40)
>DroYak_CAF1 2745 89 + 1
UAACA--CACAACACCACUGAAACC----CCCACACAUUUAAUUAAUACUAAUGCAAAGAUCCUGGCAAUGCCUCUAUGCAUGCAUUGCCACAG----A
.....--..........(((.....----......((((...........)))).........(((((((((..........))))))))))))----. ( -14.80)
>DroPer_CAF1 2416 83 + 1
AAAUAUAUACA--------UAAACC--------GAUAUCUAAUUAAAAUCACUGCAAGGGUAUAAGCAAUGCAAUUACGCAUUCAUUACCAUAGACACA
...........--------......--------..................(((....((((...(.(((((......))))))..)))).)))..... (  -8.50)
>consensus
AAACA__CACAACACCACUGAAACC____CCAACACAUUUAAUUAAUAAUACUGCAAAGAUCCUGGUAAUGCCUCUAUGCAAGCAUUACCACAG____A
...............................................................(((((((((..........)))))))))........ ( -8.96 =  -8.77 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,250,331 – 20,250,424
Length 93
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 85.05
Mean single sequence MFE -20.32
Consensus MFE -17.32
Energy contribution -16.71
Covariance contribution -0.61
Combinations/Pair 1.41
Mean z-score -2.58
Structure conservation index 0.85
SVM decision value 1.32
SVM RNA-class probability 0.941424
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20250331 93 + 23771897
AUCCUGGUAAUGCCUCUAUGCAAGCGUUACCACGGAUAUUUCCAAUU-CAAAUACUUUAAUAAAGUUA-ACGCUUGGAUUAAUCCUGUCAUCCUC
....(((((((((..........))))))))).((((...(((((..-.....((((.....))))..-....)))))...)))).......... ( -20.82)
>DroSec_CAF1 2711 93 + 1
GUCCUGGUGAUGCCUCUAUGCAAGCAUUACCACGGAUAUUUCCAAUU-CAAAUACUUUAAUAAAGUUA-ACGCUUGGAUUAAUCCUCUCAUCCUG
(((((((((((((..........))))))))).))))...(((((..-.....((((.....))))..-....)))))................. ( -21.52)
>DroSim_CAF1 2730 93 + 1
AUCCUGGUGGUGCCUCUAUGCAAGCAUUACCACGGAUAUUUCCAAUU-CAAAUACUUUAAUAAAGUUA-ACGCUUGGAUUAAUCCUCUCAUCCUG
....(((((((((..........))))))))).((((...(((((..-.....((((.....))))..-....)))))...)))).......... ( -20.82)
>DroEre_CAF1 2680 93 + 1
AUCCUGGUAAUGCCUCUAUGCAUGCGUUGCCACAGAUAUUUCCAAUU-AAAAUACUUUAAUAAAGUUA-AUGCUUGGAUUAAUCCCGUCAUCCUG
....(((((((((..........)))))))))..(((...(((((..-.....((((.....))))..-....)))))...)))........... ( -16.82)
>DroYak_CAF1 2798 93 + 1
AUCCUGGCAAUGCCUCUAUGCAUGCAUUGCCACAGAUAUUUCCAAUU-AAAAUACUUUAAUAAAGUUA-AUGCUUGGAUUAAUCCUGUCAUCCUG
.....((((((((..........))))))))((((((...(((((..-.....((((.....))))..-....)))))...)).))))....... ( -20.22)
>DroAna_CAF1 2401 87 + 1
AUCUAGGUAAUGCCAGUAAGCGUGCAUUACUCUGGAUAAUUCAAGUUUAAAAUACAUUAAUAAAGUUAAAUGCUUGGAUUAAUCUU--------G
.((((((((((((..(....)..))))))).)))))((((((((((.......((.........)).....)))))))))).....--------. ( -21.70)
>consensus
AUCCUGGUAAUGCCUCUAUGCAAGCAUUACCACGGAUAUUUCCAAUU_AAAAUACUUUAAUAAAGUUA_ACGCUUGGAUUAAUCCUGUCAUCCUG
(((((((((((((..........))))))))).))))...(((((........((((.....)))).......)))))................. (-17.32 = -16.71 +  -0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:47 2006