Locus 798

Sequence ID 3L_DroMel_CAF1
Location 2,389,970 – 2,390,078
Length 108
Max. P 0.838715
window1229 window1230

overview

Window 9

Location 2,389,970 – 2,390,078
Length 108
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 91.52
Mean single sequence MFE -49.55
Consensus MFE -40.51
Energy contribution -40.32
Covariance contribution -0.19
Combinations/Pair 1.09
Mean z-score -2.49
Structure conservation index 0.82
SVM decision value 0.74
SVM RNA-class probability 0.838715
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2389970 108 + 23771897
AGUGGGUGAUCGGAGGGGCAGGAACCGG---GAGCGGGGAGCUUCCUGCUCCUCC---ACAUCCUCACCUUCACAGUACAACUCGAGCGAGGAGCUGGCCGCCAUUUUUGGCAU
.(((((.(((.((((((((((((((((.---...))).....)))))))))))))---..)))))))).....((((....(((....)))..))))...((((....)))).. ( -49.40)
>DroSec_CAF1 16441 108 + 1
AGUGGGUGAUCGGAGGGGCAGGAACCGG---GAGCGGGGAGCUUCCUGCUCCUCC---ACAUCCUCACCUUCACAGUACAACUCGAGCGAGGAGCUGGCCGCCAUUUUCGGCAU
.(((((.(((.((((((((((((((((.---...))).....)))))))))))))---..)))))))).....((((....(((....)))..))))((((.......)))).. ( -48.50)
>DroSim_CAF1 16530 108 + 1
AGUGGGUGAUCGGAGGUGCAGGAACCGG---GAGCGGGGAGCUUCCUGCUCCUCC---ACAUCCUCACCUUCACAGUACAACUCGAGCGAGGAGCUGGCCGCCAUUUUCGGCAU
....(((....(((((((.((((...((---((((((((....))))))))))..---...))))))))))).((((....(((....)))..)))))))(((......))).. ( -47.60)
>DroEre_CAF1 16499 108 + 1
AGUGGGUGAUCGGAGGGGCAGGAACCGG---GAGCGAGGAGCUUCCUGCUCCUCC---ACAUCCUCACCUUCACAGUACAACUCAAGCGAGGAGCUGGCCGCCAUUUUUGGCAU
.(((((.(((.(((((((((((((((..---......))...)))))))))))))---..)))))))).....((((....(((....)))..))))...((((....)))).. ( -46.60)
>DroYak_CAF1 16777 108 + 1
AGUGGGUGAUCGAAGGGGCAGGAACCGG---GAGCGAGGAGCUUCCUGCUCCUCC---ACAUCCUCACCGUCACAGUACAACUCAAGCGAGGAGCUGGCCGCCAUUUUUGGCAU
.(((((.(((.(.(((((((((((((..---......))...))))))))))).)---..)))))))).....((((....(((....)))..))))...((((....)))).. ( -39.80)
>DroAna_CAF1 16069 114 + 1
GGUGGGUGAGCGGAGGGGCAGGAGCCGGCACGAAAGGGGUGUCUCCUGCUCCUCCGCCACCUCAUCGCCGUCGCAGUACAACUCCAGCGAGGAGCUGGCCGCCAUCUUUGGCAU
((((((((.(((((((((((((((.((.(.(....).).)).))))))))))))))))))).))))((....)).........(((((.....)))))..((((....)))).. ( -65.40)
>consensus
AGUGGGUGAUCGGAGGGGCAGGAACCGG___GAGCGGGGAGCUUCCUGCUCCUCC___ACAUCCUCACCUUCACAGUACAACUCGAGCGAGGAGCUGGCCGCCAUUUUUGGCAU
.(((((.(((.(((((((((((((((...........))...))))))))))))).....)))))))).....((((....(((....)))..))))...(((......))).. (-40.51 = -40.32 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 2,389,970 – 2,390,078
Length 108
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 91.52
Mean single sequence MFE -45.63
Consensus MFE -38.32
Energy contribution -37.71
Covariance contribution -0.61
Combinations/Pair 1.14
Mean z-score -1.87
Structure conservation index 0.84
SVM decision value 0.37
SVM RNA-class probability 0.709200
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2389970 108 - 23771897
AUGCCAAAAAUGGCGGCCAGCUCCUCGCUCGAGUUGUACUGUGAAGGUGAGGAUGU---GGAGGAGCAGGAAGCUCCCCGCUC---CCGGUUCCUGCCCCUCCGAUCACCCACU
..((((....))))(..((((((.......))))))..).(((..(((((.....(---(((((.(((((((.....(((...---.)))))))))).)))))).)))))))). ( -44.40)
>DroSec_CAF1 16441 108 - 1
AUGCCGAAAAUGGCGGCCAGCUCCUCGCUCGAGUUGUACUGUGAAGGUGAGGAUGU---GGAGGAGCAGGAAGCUCCCCGCUC---CCGGUUCCUGCCCCUCCGAUCACCCACU
..(((......)))(..((((((.......))))))..).(((..(((((.....(---(((((.(((((((.....(((...---.)))))))))).)))))).)))))))). ( -43.30)
>DroSim_CAF1 16530 108 - 1
AUGCCGAAAAUGGCGGCCAGCUCCUCGCUCGAGUUGUACUGUGAAGGUGAGGAUGU---GGAGGAGCAGGAAGCUCCCCGCUC---CCGGUUCCUGCACCUCCGAUCACCCACU
..(((......)))(..((((((.......))))))..).(((..((((((((.((---(.((((((.((.(((.....))).---)).)))))).))).)))..)))))))). ( -44.40)
>DroEre_CAF1 16499 108 - 1
AUGCCAAAAAUGGCGGCCAGCUCCUCGCUUGAGUUGUACUGUGAAGGUGAGGAUGU---GGAGGAGCAGGAAGCUCCUCGCUC---CCGGUUCCUGCCCCUCCGAUCACCCACU
..((((....))))(..((((((.......))))))..).(((..(((((.....(---(((((.(((((((.(.........---..).))))))).)))))).)))))))). ( -43.80)
>DroYak_CAF1 16777 108 - 1
AUGCCAAAAAUGGCGGCCAGCUCCUCGCUUGAGUUGUACUGUGACGGUGAGGAUGU---GGAGGAGCAGGAAGCUCCUCGCUC---CCGGUUCCUGCCCCUUCGAUCACCCACU
..((((....))))(..((((((.......))))))..).(((..(((((.....(---(((((.(((((((.(.........---..).))))))).)))))).)))))))). ( -40.90)
>DroAna_CAF1 16069 114 - 1
AUGCCAAAGAUGGCGGCCAGCUCCUCGCUGGAGUUGUACUGCGACGGCGAUGAGGUGGCGGAGGAGCAGGAGACACCCCUUUCGUGCCGGCUCCUGCCCCUCCGCUCACCCACC
.(((((....)))))((((.(((.((((((..((......))..)))))).))).))))(((((.(((((((.(((.......)))....))))))).)))))........... ( -57.00)
>consensus
AUGCCAAAAAUGGCGGCCAGCUCCUCGCUCGAGUUGUACUGUGAAGGUGAGGAUGU___GGAGGAGCAGGAAGCUCCCCGCUC___CCGGUUCCUGCCCCUCCGAUCACCCACU
..((((....))))((...((((((((((................)))))))).))...(((((.(((((((.(..............).))))))).)))))......))... (-38.32 = -37.71 +  -0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:29 2006