Locus 6621

Sequence ID X_DroMel_CAF1
Location 16,508,429 – 16,508,527
Length 98
Max. P 0.963299
window10815 window10816

overview

Window 5

Location 16,508,429 – 16,508,527
Length 98
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 80.76
Mean single sequence MFE -29.73
Consensus MFE -22.70
Energy contribution -23.70
Covariance contribution 1.00
Combinations/Pair 1.12
Mean z-score -2.20
Structure conservation index 0.76
SVM decision value 1.55
SVM RNA-class probability 0.963299
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16508429 98 + 22224390
GUGGCUACCAUUCCGGAAUUUUCCGUUCCGGAUGGGAAGACUCUUCCGCUUUGGAUCCAUCAGUGGGG---GUGAAUCAUCGAUACUCGAUAAUCGAUUCU
.......((((.(((((((.....))))))))))).......((((((((.((....))..)))))))---).(((((((((.....))))....))))). ( -31.70)
>DroSec_CAF1 5179 101 + 1
GUGGCUACCAUUCCGGAAUUUUCCGUUCCGGAUGGGAAGACUCUUCCGCUUUGGAUCCAUCUGUGGAGUGUGUGAAUCAUCGAUACUCGAUACUCUAUUCU
((((...(((.((((((((.....))))))))..(((((...)))))....)))..))))..((((((((((.(.(((...))).).).)))))))))... ( -29.50)
>DroEre_CAF1 5171 83 + 1
GUGAGUUCUAUUCCGGAAUUUUCCGUUCCGGAUGGGAAGAUUCUUCCGCUUUGGAGCCAUCAGCGG-----GUGAAUCAUCGGUAUUC-------------
.(((.((((((.(((((((.....))))))))))))).(((((.((((((.((....))..)))))-----).))))).)))......------------- ( -31.10)
>DroYak_CAF1 5035 83 + 1
GUGGCUUCUAUUCCGGAAUUUUCCGUUCCGGAUGGGAAGAUUCUUCCGCUUUGCCUCCAUCAGUGG-----GUGAAUCAUCGAUAUUC-------------
.....((((((.(((((((.....))))))))))))).(((((.((((((.((....))..)))))-----).)))))..........------------- ( -26.60)
>consensus
GUGGCUACCAUUCCGGAAUUUUCCGUUCCGGAUGGGAAGACUCUUCCGCUUUGGAUCCAUCAGUGG_____GUGAAUCAUCGAUACUC_____________
.......((((.(((((((.....)))))))))))((.(((((((((((..((....))...)))))).....))))).)).................... (-22.70 = -23.70 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 16,508,429 – 16,508,527
Length 98
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 80.76
Mean single sequence MFE -25.55
Consensus MFE -17.19
Energy contribution -17.75
Covariance contribution 0.56
Combinations/Pair 1.09
Mean z-score -1.97
Structure conservation index 0.67
SVM decision value 0.77
SVM RNA-class probability 0.847081
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16508429 98 - 22224390
AGAAUCGAUUAUCGAGUAUCGAUGAUUCAC---CCCCACUGAUGGAUCCAAAGCGGAAGAGUCUUCCCAUCCGGAACGGAAAAUUCCGGAAUGGUAGCCAC
......((((((((.....))))))))...---.........(((..(((..(.(((((...)))))).(((((((.......))))))).)))...))). ( -27.50)
>DroSec_CAF1 5179 101 - 1
AGAAUAGAGUAUCGAGUAUCGAUGAUUCACACACUCCACAGAUGGAUCCAAAGCGGAAGAGUCUUCCCAUCCGGAACGGAAAAUUCCGGAAUGGUAGCCAC
......((((((((.....)))).))))..............(((..(((..(.(((((...)))))).(((((((.......))))))).)))...))). ( -26.70)
>DroEre_CAF1 5171 83 - 1
-------------GAAUACCGAUGAUUCAC-----CCGCUGAUGGCUCCAAAGCGGAAGAAUCUUCCCAUCCGGAACGGAAAAUUCCGGAAUAGAACUCAC
-------------.......((.(((((..-----(((((..((....)).)))))..))))).))...(((((((.......)))))))........... ( -25.70)
>DroYak_CAF1 5035 83 - 1
-------------GAAUAUCGAUGAUUCAC-----CCACUGAUGGAGGCAAAGCGGAAGAAUCUUCCCAUCCGGAACGGAAAAUUCCGGAAUAGAAGCCAC
-------------...(((((.((......-----.)).)))))..(((...(.(((((...)))))).(((((((.......)))))))......))).. ( -22.30)
>consensus
_____________GAAUAUCGAUGAUUCAC_____CCACUGAUGGAUCCAAAGCGGAAGAAUCUUCCCAUCCGGAACGGAAAAUUCCGGAAUAGAAGCCAC
....................((.(((((.......(((....))).(((.....))).))))).))((((((((((.......)))))).))))....... (-17.19 = -17.75 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:30 2006