Locus 4344

Sequence ID 3L_DroMel_CAF1
Location 12,761,398 – 12,761,509
Length 111
Max. P 0.500000
window6723

overview

Window 3

Location 12,761,398 – 12,761,509
Length 111
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 75.69
Mean single sequence MFE -40.40
Consensus MFE -23.59
Energy contribution -23.43
Covariance contribution -0.16
Combinations/Pair 1.38
Mean z-score -1.38
Structure conservation index 0.58
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12761398 111 + 23771897
ACCAGCUUCAGUUCCUGCUCCAGCUGCUGCUGCAAGGGGCUCUUGGCCUUGGCAGGUGGUGUUCCGCC---AAGCGGUGGCAUGUCAACUGGA--AGAACACCACUCUUAGAGACU
....(((..(((((((....((((....))))..)))))))...)))(((....((((((((((.(((---(.....))))...((.....))--.))))))))))....)))... ( -39.20)
>DroVir_CAF1 20967 107 + 1
ACCAGCUGCAACUCCUGCUCCAUCUGCUGUUGCAGCGGACUCUUGGCCUUGGCGGGCGGCGUGCCGCUCGACAGCGGUGGCAUAUCGACUGUU--AAAACAUGGAU-UUA------
.(((((((((((....((.......)).))))))))((.(....).))(((((((.((..(((((((.((....)))))))))..)).)))))--))....)))..-...------ ( -42.20)
>DroPse_CAF1 31190 111 + 1
ACCAGCUGCAGUUCCUGCUCCAGUUGCUGUUGCAACGGACUCUUGGCCUUCACCGGCGGUGUGCUGCC---CAGCGGAGGCAUAUCAACUGUU--GACAGAUCACAAUUUGAGGAU
.((.((.(((((..(((...)))..))))).))(((((.......((((((.(.(((((....)))))---..).)))))).......)))))--..(((((....))))).)).. ( -36.94)
>DroMoj_CAF1 12666 109 + 1
ACCAGCUGCAGCUCCUGUUCCAUCUGCUGCUGCAACGGACUCUUGGCCUUCACGGGCGGGGUGCCACUGGACAGCGGUGGCAUAUCAACUGUUCCAUAACAUAGAG-UUA------
....((.(((((.............))))).))....((((((((((((....))))(..(((((((((.....)))))))))..).............)).))))-)).------ ( -38.92)
>DroAna_CAF1 1863 111 + 1
ACCAGCUGCAGUUCCUGCUCCAUCUGCUGCUGCAGGGGGCUCUUGCCCUUGAUGGGUGGUGUUCCGCC---CAAGGGUGGCAUGUCAACUGCA--AGAACAGCUGGCUUAGAAACU
.(((((((((((.............)))))(((((..(((...(((((((..(((((((....)))))---)).))).)))).)))..)))))--.....)))))).......... ( -49.02)
>DroPer_CAF1 29561 111 + 1
ACCAGCUGCAGUUCCUGCUCCAGUUGCUGUUGCAACGGACUCUUGGCCUUCACCGGCGGUGUGCUGCC---CAGCGGAGGCAUAUCAACUGUU--GAUAGAUCACAAUUUGAGGAU
.((.(..((((...))))..).(((((....))))))).(((...((((((.(.(((((....)))))---..).)))))).(((((.....)--))))...........)))... ( -36.10)
>consensus
ACCAGCUGCAGUUCCUGCUCCAGCUGCUGCUGCAACGGACUCUUGGCCUUCACGGGCGGUGUGCCGCC___CAGCGGUGGCAUAUCAACUGUU__AAAACAUCACA_UUAGAG__U
.((...((((((....((.......)).))))))..)).......(((......)))(((((((((((.......))))))))))).............................. (-23.59 = -23.43 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:07 2006