Locus 2290

Sequence ID 3R_DroMel_CAF1
Location 6,507,860 – 6,507,956
Length 96
Max. P 0.972013
window3702 window3703

overview

Window 2

Location 6,507,860 – 6,507,956
Length 96
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 86.60
Mean single sequence MFE -20.48
Consensus MFE -15.98
Energy contribution -16.64
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.00
Structure conservation index 0.78
SVM decision value 0.22
SVM RNA-class probability 0.641694
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6507860 96 + 27905053
CACA-AAUUGAGUUAUUGGCUUACAUUAUCCGCAGAUUAAA----------GUUCCCUGCCCACAGUUGGCAUAUCCCACACUGAAAAUAAUAUUUGCCAAUACUUG
....-....((((.((((((..(.(((((..((((......----------.....))))...(((((((......))).))))...))))).)..)))))))))). ( -21.40)
>DroSec_CAF1 272860 107 + 1
CAUAUAAAUGAGUUAUUGGCUUACACUAUUCACAGGUUAAAUACAAAUCCAGUUCCCUGCCCACAGUUGGCAUAUCCCACACUGAAAAUAAUAUUUGCCAAUACUUG
.........((((.((((((............((((...................))))....(((((((......))).))))............)))))))))). ( -18.91)
>DroSim_CAF1 303057 107 + 1
CAUAGAAAUGAGUUAUUGGCUUACACUAUUCACAGGUUAAAUUCAAAUUCAGUAGCCUGCCCACAGUUGGCAUAUCCCACACUGAAAAUAAUAUUUGCCAAUACGUG
...........((.((((((............(((((((.............)))))))....(((((((......))).))))............))))))))... ( -21.12)
>consensus
CAUA_AAAUGAGUUAUUGGCUUACACUAUUCACAGGUUAAAU_CAAAU_CAGUUCCCUGCCCACAGUUGGCAUAUCCCACACUGAAAAUAAUAUUUGCCAAUACUUG
.........((((.((((((............((((...................))))....(((((((......))).))))............)))))))))). (-15.98 = -16.64 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 6,507,860 – 6,507,956
Length 96
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 86.60
Mean single sequence MFE -27.40
Consensus MFE -26.12
Energy contribution -25.24
Covariance contribution -0.88
Combinations/Pair 1.14
Mean z-score -2.04
Structure conservation index 0.95
SVM decision value 1.69
SVM RNA-class probability 0.972013
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6507860 96 - 27905053
CAAGUAUUGGCAAAUAUUAUUUUCAGUGUGGGAUAUGCCAACUGUGGGCAGGGAAC----------UUUAAUCUGCGGAUAAUGUAAGCCAAUAACUCAAUU-UGUG
....(((((((..(((((((((.((((.(((......)))))))...(((((....----------.....))))))))))))))..)))))))........-.... ( -25.40)
>DroSec_CAF1 272860 107 - 1
CAAGUAUUGGCAAAUAUUAUUUUCAGUGUGGGAUAUGCCAACUGUGGGCAGGGAACUGGAUUUGUAUUUAACCUGUGAAUAGUGUAAGCCAAUAACUCAUUUAUAUG
....(((((((..(((((((((.(((.((..(((((.(((....))).(((....))).....)))))..))))).)))))))))..)))))))............. ( -30.20)
>DroSim_CAF1 303057 107 - 1
CACGUAUUGGCAAAUAUUAUUUUCAGUGUGGGAUAUGCCAACUGUGGGCAGGCUACUGAAUUUGAAUUUAACCUGUGAAUAGUGUAAGCCAAUAACUCAUUUCUAUG
....(((((((..(((((((((.(((.((((....((((.......))))..))))(((((....)))))..))).)))))))))..)))))))............. ( -26.60)
>consensus
CAAGUAUUGGCAAAUAUUAUUUUCAGUGUGGGAUAUGCCAACUGUGGGCAGGGAACUG_AUUUG_AUUUAACCUGUGAAUAGUGUAAGCCAAUAACUCAUUU_UAUG
....(((((((..(((((((((.((((.(((......)))))))...(((((...................))))))))))))))..)))))))............. (-26.12 = -25.24 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:44 2006