Locus 1742

Sequence ID 2L_DroMel_CAF1
Location 4,763,127 – 4,763,234
Length 107
Max. P 0.939482
window2797 window2798

overview

Window 7

Location 4,763,127 – 4,763,234
Length 107
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 88.16
Mean single sequence MFE -27.00
Consensus MFE -22.22
Energy contribution -22.78
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -2.96
Structure conservation index 0.82
SVM decision value 1.28
SVM RNA-class probability 0.939482
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4763127 107 + 22407834
AUGCCCAGGAGAAAAGCUCCUCUAAAUAGGGCCAAUGUGCCAAAAACAAACCGGGCCAGAAAAUCUGGAAAAAAACACAAGAUGCACUUAUCCAAGGCAUCGACUUA
..(((((((((.....)))))........(((......)))...........))))(((.....))).............(((((.(((....))))))))...... ( -27.90)
>DroSec_CAF1 211425 107 + 1
AUUGCCAGGAGAAAAGCUCCUCUAAAUAAUGCCAAUGUGCCAAGAGCAAGCCGGUCCAGAAAAUCUGGGAAAAAAAACAAAAUGCACUUAGCAAAGGCACCGAUUUA
..(((((((((.....)))))........(((.((.((((..............(((((.....)))))..............)))))).)))..))))........ ( -25.99)
>DroSim_CAF1 188403 107 + 1
AUUGCCAGGAGAAAAUCUCCUCUAAAAAGGGCCAAUGUGCCAAGAGCAAGCCAGGCCAGAAAAUCUGGGAACAAAAACAAAAUGCACUUAGCCAAGGCACCGAUUUA
..(((((((((.....)))))........(((.((.((((...............((((.....))))...............)))))).)))..))))........ ( -27.11)
>consensus
AUUGCCAGGAGAAAAGCUCCUCUAAAUAGGGCCAAUGUGCCAAGAGCAAGCCGGGCCAGAAAAUCUGGGAAAAAAAACAAAAUGCACUUAGCCAAGGCACCGAUUUA
..(((((((((.....)))))........(((.((.((((...............((((.....))))...............)))))).)))..))))........ (-22.22 = -22.78 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 4,763,127 – 4,763,234
Length 107
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 88.16
Mean single sequence MFE -31.30
Consensus MFE -25.62
Energy contribution -26.18
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.60
Structure conservation index 0.82
SVM decision value 0.94
SVM RNA-class probability 0.885452
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4763127 107 - 22407834
UAAGUCGAUGCCUUGGAUAAGUGCAUCUUGUGUUUUUUUCCAGAUUUUCUGGCCCGGUUUGUUUUUGGCACAUUGGCCCUAUUUAGAGGAGCUUUUCUCCUGGGCAU
.......((((((.(((.(((.((.((((.((.......((((.....)))).(((((.(((.....))).))))).......)).)))))).))).))).)))))) ( -28.80)
>DroSec_CAF1 211425 107 - 1
UAAAUCGGUGCCUUUGCUAAGUGCAUUUUGUUUUUUUUCCCAGAUUUUCUGGACCGGCUUGCUCUUGGCACAUUGGCAUUAUUUAGAGGAGCUUUUCUCCUGGCAAU
(((((.((((((..(((((((.(((....(((.......((((.....))))...))).))).)))))))....))))))))))).(((((.....)))))...... ( -31.40)
>DroSim_CAF1 188403 107 - 1
UAAAUCGGUGCCUUGGCUAAGUGCAUUUUGUUUUUGUUCCCAGAUUUUCUGGCCUGGCUUGCUCUUGGCACAUUGGCCCUUUUUAGAGGAGAUUUUCUCCUGGCAAU
((((..((.(((.((((((((.(((....(((.......((((.....))))...))).))).)))))).))..)))))..)))).(((((.....)))))...... ( -33.70)
>consensus
UAAAUCGGUGCCUUGGCUAAGUGCAUUUUGUUUUUUUUCCCAGAUUUUCUGGCCCGGCUUGCUCUUGGCACAUUGGCCCUAUUUAGAGGAGCUUUUCUCCUGGCAAU
........((((..((((((((((...............((((.....))))...............)))).))))))........(((((.....))))))))).. (-25.62 = -26.18 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:00 2006