Locus 4623

Sequence ID X_DroMel_CAF1
Location 12,092,271 – 12,092,371
Length 100
Max. P 0.999914
window7597 window7598

overview

Window 7

Location 12,092,271 – 12,092,371
Length 100
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 76.06
Mean single sequence MFE -34.97
Consensus MFE -23.25
Energy contribution -23.70
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -3.34
Structure conservation index 0.67
SVM decision value 4.52
SVM RNA-class probability 0.999914
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12092271 100 + 22224390
GUAU----GUGUGGGAG--------GGGUGU-UUCAGGGGGUU-CCAACAACCCCUUAAACCCCUCCGUAAAUUUCGCGAUAUUUUCGAUUUCGCGUUUACUUUGCCUCCUUUU
....----.....((((--------((((..-...((((((((-.....))))))))..))))))))(((((...(((((.(((...))).))))))))))............. ( -36.20)
>DroEre_CAF1 16350 92 + 1
GAG----------------------GGGGGUUCCAAAGGGGAUCCAAACCACCCCUUAAACCCCUCCGUAAAUUUCGCGAUAUUUUCGAUUUCGCGUUUACUUUGCCUCCUUUU
(((----------------------(((((((...((((((..........)))))).))))))...(((((...(((((.(((...))).))))))))))....))))..... ( -31.50)
>DroYak_CAF1 16712 114 + 1
GUGAGUGAGUGUGAGCGGGGUUCCAGGGGGUUCCAAAGGGGGUCUUAACAACCCCUGAAACCCAUCCGUAAAUUUCGCGAUAUUUUCGAUUUCGCGUUUACUUUGCCUCCUUUU
..(((((((((((((((..(((...(((((((....(((((..........)))))..)))))..))...)))..)))((.....))....))))))))))))........... ( -37.20)
>consensus
GUG_____GUGUG_G_G________GGGGGUUCCAAAGGGGAUCCAAACAACCCCUUAAACCCCUCCGUAAAUUUCGCGAUAUUUUCGAUUUCGCGUUUACUUUGCCUCCUUUU
.........................((((((....((((((..........))))))..........(((((...(((((.(((...))).))))))))))...)))))).... (-23.25 = -23.70 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 12,092,271 – 12,092,371
Length 100
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 76.06
Mean single sequence MFE -34.57
Consensus MFE -20.22
Energy contribution -21.33
Covariance contribution 1.11
Combinations/Pair 1.04
Mean z-score -3.56
Structure conservation index 0.58
SVM decision value 3.81
SVM RNA-class probability 0.999633
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12092271 100 - 22224390
AAAAGGAGGCAAAGUAAACGCGAAAUCGAAAAUAUCGCGAAAUUUACGGAGGGGUUUAAGGGGUUGUUGG-AACCCCCUGAA-ACACCC--------CUCCCACAC----AUAC
.............((((((((((.((.....)).)))))...)))))(((((((((((.((((((.....-)))))).))).-..))))--------)))).....----.... ( -34.20)
>DroEre_CAF1 16350 92 - 1
AAAAGGAGGCAAAGUAAACGCGAAAUCGAAAAUAUCGCGAAAUUUACGGAGGGGUUUAAGGGGUGGUUUGGAUCCCCUUUGGAACCCCC----------------------CUC
.....((((....((((((((((.((.....)).)))))...)))))...(((((((((((((.(((....))))))))).))))))))----------------------))) ( -32.00)
>DroYak_CAF1 16712 114 - 1
AAAAGGAGGCAAAGUAAACGCGAAAUCGAAAAUAUCGCGAAAUUUACGGAUGGGUUUCAGGGGUUGUUAAGACCCCCUUUGGAACCCCCUGGAACCCCGCUCACACUCACUCAC
....(..(((...((((((((((.((.....)).)))))...)))))....((((((((((((((.(.(((.....))).).)).)))))))))))).)))..).......... ( -37.50)
>consensus
AAAAGGAGGCAAAGUAAACGCGAAAUCGAAAAUAUCGCGAAAUUUACGGAGGGGUUUAAGGGGUUGUUAGGAACCCCUUUGGAACCCCC________C_C_CACAC_____CAC
.............((((((((((.((.....)).)))))...)))))...(((((((.(((((..........)))))...))))))).......................... (-20.22 = -21.33 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:37 2006