Locus 5794

Sequence ID 2R_DroMel_CAF1
Location 18,349,511 – 18,349,671
Length 160
Max. P 0.824901
window9278 window9279

overview

Window 8

Location 18,349,511 – 18,349,631
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.97
Mean single sequence MFE -43.88
Consensus MFE -43.61
Energy contribution -42.80
Covariance contribution -0.81
Combinations/Pair 1.09
Mean z-score -1.66
Structure conservation index 0.99
SVM decision value 0.69
SVM RNA-class probability 0.824901
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18349511 120 + 20766785
UCGGCAUUGGAUUCCUCAGCGAGGAGAACAAGAAUCUGGCUAUCGUGCUGAUGACCGUCUCGGUGGGUGUAAACAGUGGAGCCACCAUUGGUAGUUCCCUGAACUCCAUCGAUCUGUCAC
(((((((((..((((((...))))))..)).((.........)))))))))((((.(..((((((((.((...(((.(((((.(((...))).)))))))).)))))))))).).)))). ( -41.00)
>DroSim_CAF1 1265 120 + 1
UCGGCAUUGGAUUCCUCAGCGAGGAGAACAAGAAUCUGGCCAUCGUGCUGAUGACCGUCUCGGUGGGUGUAAACAGUGGAGCAACCAUUGGUAGUUCCCUGAACUCCAUCGAUCUGUCAC
((((((((((.((((((...))))))..((......)).)))..)))))))((((.(..((((((((.((...(((.(((((.(((...))).)))))))).)))))))))).).)))). ( -42.90)
>DroEre_CAF1 1094 120 + 1
UCGGCAUUGGAUUCCUCAGCGAGGAGAACAAGAAUCUGGCCAUCGUGCUGAUGACCGUGUCGGUGGGUGUGAACAGUGGAGCCACCAUUGGUAGCUCCCUGAAUUCCAUCGAUCUGUCAC
((((((((((.((((((...))))))..((......)).)))..)))))))((((.(.(((((((((......(((.(((((.(((...))).))))))))...)))))))))).)))). ( -45.90)
>DroYak_CAF1 1424 120 + 1
UCGGCAUUGGAUUCCUCAGCGAGGAGAACAAGAAUCUGGCCAUUGUGCUGAUGACCGUCUCGGUGGGUGUGAACAGUGGAGCCACCAUCGGUAGCUCCCUGAACUCCAUCGAUCUGUCGC
((((((((((.((((((...))))))..((......)).)))..))))))).(((.(..((((((((.((...(((.(((((.(((...))).)))))))).)))))))))).).))).. ( -45.70)
>consensus
UCGGCAUUGGAUUCCUCAGCGAGGAGAACAAGAAUCUGGCCAUCGUGCUGAUGACCGUCUCGGUGGGUGUAAACAGUGGAGCCACCAUUGGUAGCUCCCUGAACUCCAUCGAUCUGUCAC
((((((((((.((((((...))))))..((......)).)))..)))))))((((....((((((((.((...(((.(((((.(((...))).)))))))).))))))))))...)))). (-43.61 = -42.80 +  -0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 18,349,551 – 18,349,671
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.14
Mean single sequence MFE -40.45
Consensus MFE -39.62
Energy contribution -38.88
Covariance contribution -0.75
Combinations/Pair 1.12
Mean z-score -1.38
Structure conservation index 0.98
SVM decision value 0.13
SVM RNA-class probability 0.595885
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18349551 120 + 20766785
UAUCGUGCUGAUGACCGUCUCGGUGGGUGUAAACAGUGGAGCCACCAUUGGUAGUUCCCUGAACUCCAUCGAUCUGUCACCCAAUCACGCUGGUAUAUUGAUUGGCUUGAGCAAUACGGU
.((((((.((.((((.(..((((((((.((...(((.(((((.(((...))).)))))))).)))))))))).).)))).....(((.((..((......))..)).))).)).)))))) ( -39.80)
>DroSim_CAF1 1305 120 + 1
CAUCGUGCUGAUGACCGUCUCGGUGGGUGUAAACAGUGGAGCAACCAUUGGUAGUUCCCUGAACUCCAUCGAUCUGUCACCCAAUCACGCUGGUAUAUUGAUUGGCUUGAGCAAUACGGU
.((((((.((.((((.(..((((((((.((...(((.(((((.(((...))).)))))))).)))))))))).).)))).....(((.((..((......))..)).))).)).)))))) ( -39.90)
>DroEre_CAF1 1134 120 + 1
CAUCGUGCUGAUGACCGUGUCGGUGGGUGUGAACAGUGGAGCCACCAUUGGUAGCUCCCUGAAUUCCAUCGAUCUGUCACCCAAUCACGCUGGUAUAUUGAUUGGCUUGAGUAAUACGGU
.((((((....((((.(.(((((((((......(((.(((((.(((...))).))))))))...)))))))))).)))).....(((.((..((......))..)).)))....)))))) ( -41.50)
>DroYak_CAF1 1464 120 + 1
CAUUGUGCUGAUGACCGUCUCGGUGGGUGUGAACAGUGGAGCCACCAUCGGUAGCUCCCUGAACUCCAUCGAUCUGUCGCCCAAUCACGCUGGCAUAUUGAUUGGCUUGAGCAAUACGGU
.....((((.(.(((.(..((((((((.((...(((.(((((.(((...))).)))))))).)))))))))).).)))(((.(((((...........)))))))).).))))....... ( -40.60)
>consensus
CAUCGUGCUGAUGACCGUCUCGGUGGGUGUAAACAGUGGAGCCACCAUUGGUAGCUCCCUGAACUCCAUCGAUCUGUCACCCAAUCACGCUGGUAUAUUGAUUGGCUUGAGCAAUACGGU
.((((((.((.((((....((((((((.((...(((.(((((.(((...))).)))))))).))))))))))...)))).....(((.((..((......))..)).))).)).)))))) (-39.62 = -38.88 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:32 2006