Locus 1800

Sequence ID X_DroMel_CAF1
Location 4,980,383 – 4,980,475
Length 92
Max. P 0.999964
window2937 window2938

overview

Window 7

Location 4,980,383 – 4,980,475
Length 92
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 70.86
Mean single sequence MFE -20.63
Consensus MFE -14.45
Energy contribution -14.79
Covariance contribution 0.34
Combinations/Pair 1.25
Mean z-score -1.74
Structure conservation index 0.70
SVM decision value 2.60
SVM RNA-class probability 0.995666
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4980383 92 + 22224390
UUUAGAAACUAGUUUUUUUUUUUUUGUUUUGUUGCCUUUGGCUUUAUGCCACUUUGAG------CAAUCGCAAGAGCUAAAGGCACUUGAUGAUUAAG
...................((..(..((..((.((((((((((((.(((......((.------...)))))))))))))))))))..))..)..)). ( -23.30)
>DroSec_CAF1 45863 82 + 1
UUUGGAAACUAGUUUUUU----------UUGUUGCCUUCGGCUUUAUAUCACUUUGCG------CAAUCGCAAAGGCCAAAGGCACGUGAUGAUUAUG
...(....)(((((....----------.(((.(((((.(((.........(((((((------....)))))))))).))))))))....))))).. ( -22.00)
>DroEre_CAF1 51362 83 + 1
UUUAGAAACUACUUUUU------------UUUUGCCUUUGGCUGUAUACCAAUUUGUGUUCCGACAAUGGAAAGGGCCGAAAGCACUCG---AUUAAG
...........(((..(------------(..(((.(((((((.(...(((..((((......)))))))..).))))))).)))...)---)..))) ( -16.60)
>consensus
UUUAGAAACUAGUUUUUU__________UUGUUGCCUUUGGCUUUAUACCACUUUGAG______CAAUCGCAAGGGCCAAAGGCACUUGAUGAUUAAG
................................(((((((((((((........(((........))).....)))))))))))))............. (-14.45 = -14.79 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 4,980,383 – 4,980,475
Length 92
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 70.86
Mean single sequence MFE -19.63
Consensus MFE -11.87
Energy contribution -13.10
Covariance contribution 1.23
Combinations/Pair 1.19
Mean z-score -2.82
Structure conservation index 0.60
SVM decision value 4.94
SVM RNA-class probability 0.999964
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4980383 92 - 22224390
CUUAAUCAUCAAGUGCCUUUAGCUCUUGCGAUUG------CUCAAAGUGGCAUAAAGCCAAAGGCAACAAAACAAAAAAAAAAAAACUAGUUUCUAAA
.............(((((((.(((..(((.(((.------.....))).)))...))).)))))))................................ ( -19.10)
>DroSec_CAF1 45863 82 - 1
CAUAAUCAUCACGUGCCUUUGGCCUUUGCGAUUG------CGCAAAGUGAUAUAAAGCCGAAGGCAACAA----------AAAAAACUAGUUUCCAAA
.............(((((((((((((((((....------))))))).........))))))))))....----------.................. ( -24.40)
>DroEre_CAF1 51362 83 - 1
CUUAAU---CGAGUGCUUUCGGCCCUUUCCAUUGUCGGAACACAAAUUGGUAUACAGCCAAAGGCAAAA------------AAAAAGUAGUUUCUAAA
......---.((.((((((..(((..((((......))))......(((((.....))))).)))....------------..)))))).))...... ( -15.40)
>consensus
CUUAAUCAUCAAGUGCCUUUGGCCCUUGCGAUUG______CACAAAGUGGUAUAAAGCCAAAGGCAACAA__________AAAAAACUAGUUUCUAAA
.............((((((((((...(((.(((............))).)))....))))))))))................................ (-11.87 = -13.10 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:09 2006