Locus 4428

Sequence ID X_DroMel_CAF1
Location 11,703,035 – 11,703,149
Length 114
Max. P 0.656738
window7278

overview

Window 8

Location 11,703,035 – 11,703,149
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.58
Mean single sequence MFE -28.32
Consensus MFE -17.28
Energy contribution -18.12
Covariance contribution 0.84
Combinations/Pair 1.17
Mean z-score -2.07
Structure conservation index 0.61
SVM decision value 0.26
SVM RNA-class probability 0.656738
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11703035 114 - 22224390
AAUUUCCUUUCGAUACCAGACGUUAUUUGUCCAAACCUAUCGAAGCCUAUCGGUUCUCGAUAUCUGCACGCGCCAAUCGGUGC--AAAGCUUUUGGUAUUUUU--UAUUACCUAUUGA--
...........(((((((((.(((....((.((....((((((((((....)))).))))))..)).))(((((....)))))--..))).)))))))))...--.............-- ( -28.90)
>DroSec_CAF1 3605 110 - 1
AAUUUCCUUUCGAUACCAGACGUUUUUUGUCCGAACCUAUCGAAGCCUAUCGGUUCUCGAUAUCUGC----GCCAAACGGUGC--AAAGCUUUUGGUAUUUUU--UAUUACCUAUUGA--
...........(((((((((.(((((...........((((((((((....)))).))))))...((----(((....)))))--))))).)))))))))...--.............-- ( -29.50)
>DroSim_CAF1 2731 114 - 1
AAUUUCCUUUCGAUACCAGACGUUAUUUGUCCGAACCUAUCGAAGCCUAUCGGUUCUCGAUAUCUGCACUCGCCAAUCGGUGC--AAAGCUUUCGGUAUUUUU--UAUUACCUAUUGA--
...........((((((.((((.....)))).(((..((((((((((....)))).))))))..(((((.((.....))))))--).....)))))))))...--.............-- ( -26.00)
>DroEre_CAF1 3958 118 - 1
AAUUUGCGUUCGAUACCAGACGUAAUUGGCCCGAACCUAUCGGAGU-UAUCGGUUCCCAGUAUCUGGCC-CGGCUAUCGGUGCGCUAAGCUUUUGGUAUUUUUUGUAUUACCGAUUUUUC
.....((((((((((((.........((((((((.....)))).))-))..((...((((...)))).)-))).)))))).)))).......((((((..........))))))...... ( -29.40)
>DroYak_CAF1 3966 115 - 1
AACUUCCUUUCGAUACCAGACGUAAUCUGUCCGAGCUUAUCGGAGUCUAUCGGUUUCCGAUAUUUGUCCGCGGCUAUCGGUGC---AAGCUUUUGGUAUUUUU--UAUUACAUAUUUUCU
...........(((((((((.((....((((((((((...((((...((((((...))))))....)))).)))..)))).))---).)).)))))))))...--............... ( -27.80)
>consensus
AAUUUCCUUUCGAUACCAGACGUUAUUUGUCCGAACCUAUCGAAGCCUAUCGGUUCUCGAUAUCUGCAC_CGCCAAUCGGUGC__AAAGCUUUUGGUAUUUUU__UAUUACCUAUUGA__
...........(((((((((.(((....((((((...((((((((((....)))).))))))...((....))...)))).))....))).))))))))).................... (-17.28 = -18.12 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:49 2006