Locus 6007

Sequence ID 2L_DroMel_CAF1
Location 16,916,882 – 16,916,981
Length 99
Max. P 0.984348
window9541 window9542

overview

Window 1

Location 16,916,882 – 16,916,981
Length 99
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 87.17
Mean single sequence MFE -22.55
Consensus MFE -18.14
Energy contribution -19.70
Covariance contribution 1.56
Combinations/Pair 1.04
Mean z-score -2.81
Structure conservation index 0.80
SVM decision value 1.97
SVM RNA-class probability 0.984348
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16916882 99 + 22407834
AAUUUCAUAAUUAUGCAAGCACAAAUGCCAUUGUGUGACCUCCCCACCCCACUUGUGGGGGCAUAGUCCACACAAGCCCCACCCCCA---CCACCUGCUUAA
.........(((((((..((((((......)))))).....((((((.......)))))))))))))......((((..........---......)))).. ( -23.29)
>DroSec_CAF1 29734 98 + 1
AAUUUCAUAAUUAUGCAAGCACAAAUGCCAUUGUGUGACCUCCCCAC-CCACUUGUGGGGGCAUAGUCCACACAAGUCCCUCUCCCA---CCGCCUGCUUAA
..............(((.((..........(((((((((.(((((((-......)))))))....)).)))))))(.....).....---..)).))).... ( -23.80)
>DroSim_CAF1 34398 98 + 1
AAUUUCAUAAUUAUGCAAGCACAAAUGCCAUUGUGUGACCUCCCCAC-CCACUUGUGGGGGCAUGGUCCACACAAGUCCCUCCCCCA---CCGCCUGCUUAA
..............(((.((.(....)...(((((((((((((((((-......)))))))...))).)))))))............---..)).))).... ( -27.20)
>DroYak_CAF1 29237 98 + 1
AAUUUCAUAAUUAUGCAAGCACAAAUGCCAUUGUGUGACCUCCCCAC-CCACUUGUGUG-CAUCGGUCCGC-CACGCACCAUC-UCAUCCCCCUUUGCUUAA
..............((((((((((......))))))...........-.....((.(((-(...((....)-)..))))))..-..........)))).... ( -15.90)
>consensus
AAUUUCAUAAUUAUGCAAGCACAAAUGCCAUUGUGUGACCUCCCCAC_CCACUUGUGGGGGCAUAGUCCACACAAGCCCCACCCCCA___CCGCCUGCUUAA
..............(((.(((....)))..(((((((((((((((((.......)))))))...))).)))))))....................))).... (-18.14 = -19.70 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,916,882 – 16,916,981
Length 99
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 87.17
Mean single sequence MFE -31.40
Consensus MFE -22.36
Energy contribution -23.30
Covariance contribution 0.94
Combinations/Pair 1.13
Mean z-score -1.90
Structure conservation index 0.71
SVM decision value 0.48
SVM RNA-class probability 0.751855
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16916882 99 - 22407834
UUAAGCAGGUGG---UGGGGGUGGGGCUUGUGUGGACUAUGCCCCCACAAGUGGGGUGGGGAGGUCACACAAUGGCAUUUGUGCUUGCAUAAUUAUGAAAUU
...........(---..((.(..(((((((((((..((.(.((((((....))))).).).))..))))))..))).))..).))..).............. ( -32.70)
>DroSec_CAF1 29734 98 - 1
UUAAGCAGGCGG---UGGGAGAGGGACUUGUGUGGACUAUGCCCCCACAAGUGG-GUGGGGAGGUCACACAAUGGCAUUUGUGCUUGCAUAAUUAUGAAAUU
....((((((..---............(((((((..((....((((((......-))))))))..)))))))..((....)))))))).............. ( -31.40)
>DroSim_CAF1 34398 98 - 1
UUAAGCAGGCGG---UGGGGGAGGGACUUGUGUGGACCAUGCCCCCACAAGUGG-GUGGGGAGGUCACACAAUGGCAUUUGUGCUUGCAUAAUUAUGAAAUU
....((((((.(---((((((.((..(......)..))...)))))))..((((-.(.....).))))((((......)))))))))).............. ( -35.00)
>DroYak_CAF1 29237 98 - 1
UUAAGCAAAGGGGGAUGA-GAUGGUGCGUG-GCGGACCGAUG-CACACAAGUGG-GUGGGGAGGUCACACAAUGGCAUUUGUGCUUGCAUAAUUAUGAAAUU
....((((..(.(((((.-.....((.(((-((...((.((.-(((....))).-)).))...))))).))....))))).)..)))).............. ( -26.50)
>consensus
UUAAGCAGGCGG___UGGGGGAGGGACUUGUGUGGACCAUGCCCCCACAAGUGG_GUGGGGAGGUCACACAAUGGCAUUUGUGCUUGCAUAAUUAUGAAAUU
....((((((..................((((((.(((....((((((.......)))))).)))))))))...((....)))))))).............. (-22.36 = -23.30 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:44 2006