Locus 1386

Sequence ID 2R_DroMel_CAF1
Location 5,344,942 – 5,345,041
Length 99
Max. P 0.971314
window2381

overview

Window 1

Location 5,344,942 – 5,345,041
Length 99
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 76.28
Mean single sequence MFE -19.38
Consensus MFE -7.30
Energy contribution -8.34
Covariance contribution 1.04
Combinations/Pair 1.09
Mean z-score -2.34
Structure conservation index 0.38
SVM decision value 1.67
SVM RNA-class probability 0.971314
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5344942 99 - 20766785
AUGUACA----CACACAUUUUAUAUAUACGGGCCCUCCUAAUCGAGGGAACUCAUUCCCC-----GACGUGCC-CCUGCUUUCACGGCAUAACCAUCGCCUCCUCAUAA
.......----..................((((........(((.(((((....))))))-----)).(((((-...........))))).......))))........ ( -19.20)
>DroSec_CAF1 9827 89 - 1
-----------CACACAUUUUAUAUAUACGGGCC---CUAAUCGAGGGAACUCAAUCCCC-----GACGUGCC-CCUGCUUUCACGGCAUAACCAUCGCCUCCUCAUAC
-----------..................((((.---(...(((.((((......)))))-----)).).)))-)..........(((.........)))......... ( -18.70)
>DroSim_CAF1 9985 89 - 1
-----------CACACAUUUUAUAUAUACGGGCC---CUAAUCGAGGGAACUCAUUCCCC-----GACGUGCC-CCUGCUUUCACGGCAUAACCAUCUCCUCCUCAUAC
-----------..................((((.---(...(((.(((((....))))))-----)).).)))-).((((.....)))).................... ( -18.20)
>DroEre_CAF1 9298 99 - 1
GUGUACACCCGUACACACAAU----ACACGCGCC---CUAAUCGAGGGGACUCUUGCCCCCCACUCAUGCACCACCUGCUUUCACGGCACAACCAGCGCC---UCAUAA
((((((....)))))).....----....((((.---......(((....))).((((..........(((.....)))......))))......)))).---...... ( -24.89)
>DroYak_CAF1 9929 89 - 1
-UA--------UACACACCAUAUAAAUACGGGCC---CUAAUCGAGGGAACUCAUUCCCC-----GACGUGCCCCCUGCUUUCUCGACUUUACCAUCGCC---UCAUAC
-..--------..................((((.---(...(((.(((((....))))))-----)).).))))..........................---...... ( -15.90)
>consensus
_U_________CACACAUUUUAUAUAUACGGGCC___CUAAUCGAGGGAACUCAUUCCCC_____GACGUGCC_CCUGCUUUCACGGCAUAACCAUCGCCUCCUCAUAC
..............................(((..........(((....)))...............(((((............))))).......)))......... ( -7.30 =  -8.34 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:36 2006