Locus 7144

Sequence ID 3L_DroMel_CAF1
Location 19,190,678 – 19,190,793
Length 115
Max. P 0.999942
window11600 window11601

overview

Window 0

Location 19,190,678 – 19,190,793
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 69.32
Mean single sequence MFE -20.79
Consensus MFE -14.88
Energy contribution -14.00
Covariance contribution -0.88
Combinations/Pair 1.24
Mean z-score -2.17
Structure conservation index 0.72
SVM decision value 4.71
SVM RNA-class probability 0.999942
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19190678 115 + 23771897
AUUUUCCGGAAGUAA-----UACUACUCUACCCCUUCCAUAAUUCGAAUAACUUUUGGUUUGGCUACUAUUGCUGCCUACAUUUGUAUACCCCAGCAGAGGGUAUUACAAUUUGUAACAC
.......((.(((((-----((.((((..(((........................)))..)).)).))))))).))((((.(((((((((((....).))))).)))))..)))).... ( -22.56)
>DroSec_CAF1 19077 99 + 1
---------------CUUUCUAU--UUUUUUAUUUUCCGGAAGUAAUACUACUC----UAUUACUACCAUUGCUGGCCACAUUUGUAUACCCUAGCAGAGGGUAUUACAAUUUGUAACAC
---------------........--.............((.(((((((......----))))))).))..........(((.(((((((((((.....)))))).)))))..)))..... ( -21.00)
>DroSim_CAF1 23369 99 + 1
---------------CUUUCUAU--UUUUUAAUUUUCCGGAAGUAAUACUACUC----UAUUACUACGAUUGCUGCCCACAUUUGUAUACCCUAGCAGAGGGUAUUGCAAUUUGUAACAC
---------------........--............((..(((((((......----))))))).))..........(((.(((((((((((.....)))))).)))))..)))..... ( -18.80)
>consensus
_______________CUUUCUAU__UUUUUAAUUUUCCGGAAGUAAUACUACUC____UAUUACUACCAUUGCUGCCCACAUUUGUAUACCCUAGCAGAGGGUAUUACAAUUUGUAACAC
.........................................(((((((..........))))))).............(((.(((((((((((.....)))))).)))))..)))..... (-14.88 = -14.00 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 19,190,678 – 19,190,793
Length 115
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 69.32
Mean single sequence MFE -23.07
Consensus MFE -13.08
Energy contribution -13.53
Covariance contribution 0.45
Combinations/Pair 1.18
Mean z-score -1.63
Structure conservation index 0.57
SVM decision value 0.82
SVM RNA-class probability 0.858361
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19190678 115 - 23771897
GUGUUACAAAUUGUAAUACCCUCUGCUGGGGUAUACAAAUGUAGGCAGCAAUAGUAGCCAAACCAAAAGUUAUUCGAAUUAUGGAAGGGGUAGAGUAGUA-----UUACUUCCGGAAAAU
....((((..(((((.((((((.....))))))))))).))))(((.((....)).)))...((...((((.....))))..(((((..(((......))-----)..)))))))..... ( -28.00)
>DroSec_CAF1 19077 99 - 1
GUGUUACAAAUUGUAAUACCCUCUGCUAGGGUAUACAAAUGUGGCCAGCAAUGGUAGUAAUA----GAGUAGUAUUACUUCCGGAAAAUAAAAAA--AUAGAAAG---------------
(.((((((..(((((.((((((.....))))))))))).))))))).....(((.(((((((----......))))))).)))............--........--------------- ( -23.90)
>DroSim_CAF1 23369 99 - 1
GUGUUACAAAUUGCAAUACCCUCUGCUAGGGUAUACAAAUGUGGGCAGCAAUCGUAGUAAUA----GAGUAGUAUUACUUCCGGAAAAUUAAAAA--AUAGAAAG---------------
..........((((.(((((((.....))))))).....((....))))))(((.(((((((----......)))))))..)))...........--........--------------- ( -17.30)
>consensus
GUGUUACAAAUUGUAAUACCCUCUGCUAGGGUAUACAAAUGUGGGCAGCAAUAGUAGUAAUA____GAGUAGUAUUACUUCCGGAAAAUAAAAAA__AUAGAAAG_______________
.(((((((..(((((.((((((.....))))))))))).))))).))....(((.(((((((..........))))))).)))..................................... (-13.08 = -13.53 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:11 2006