Locus 6340

Sequence ID X_DroMel_CAF1
Location 15,996,095 – 15,996,210
Length 115
Max. P 0.605937
window10346

overview

Window 6

Location 15,996,095 – 15,996,210
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.27
Mean single sequence MFE -27.40
Consensus MFE -3.88
Energy contribution -4.52
Covariance contribution 0.64
Combinations/Pair 1.08
Mean z-score -1.53
Structure conservation index 0.14
SVM decision value 0.15
SVM RNA-class probability 0.605937
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15996095 115 - 22224390
UUAUUUCUUAAUUCUUCUGCAAUCGCAAGGG----GGGAGGGGGCGGGGGGGGGGGGUGUCGUGGGCCUCGAACAAACAAGAAAC-CCAACACACUCGUCCUAUAAUCAGCGAAACAGCG
...((((......(((((.(..((....)).----.).)))))((.((.((((.((((((..((((..((..........))..)-)))..)))))).))))....)).))))))..... ( -35.60)
>DroSec_CAF1 64051 93 - 1
UAGG--AUUAAUUCUUCUACAAUCGCAAGGG----GGGCGA--------------------GUGGGCCUCGAACAAACGAGAAAC-CCAACACACUCGUCCUAUAAUCAGCGAAACAGCG
...(--((((............((....))(----((((((--------------------(((((.((((......))))...)-)).....))))))))).))))).((......)). ( -28.30)
>DroSim_CAF1 58241 92 - 1
UAGG--AUUAAUUCUUCUACAAUCGCAAGG-----GGGCGA--------------------GUGGGCCUCGAACAAACGAGAAAC-CCAACACACUCGUCCUAUAAUCAGCGAAACAGCG
...(--((((.............(....)(-----((((((--------------------(((((.((((......))))...)-)).....))))))))).))))).((......)). ( -27.60)
>DroEre_CAF1 62776 90 - 1
CAGG--AUUUAUUCUCCAACAAUUGUGGCGGG-------GA--------------------GUGGCCCUCAAACAAACAAGAAACCCCAACACACUUGUCC-AUAAUCAGCGAAACAGCG
..((--(.......))).((((.((((..(((-------(.--------------------.((.............)).....))))..)))).))))..-.......((......)). ( -18.12)
>DroYak_CAF1 47068 97 - 1
UAGG--AUUAAUUCGCCAACAAUUGAGGUGGGGGGGGAGGA--------------------GUGGGCCUCUAACAAACAAGAAAC-CCAACAGACUCGUCCUAUAAUCAGCGAAACAGCG
...(--((((..(((((.........)))))((((.(((..--------------------.((((..(((........)))..)-))).....))).)))).))))).((......)). ( -27.40)
>consensus
UAGG__AUUAAUUCUUCUACAAUCGCAAGGG____GGGCGA____________________GUGGGCCUCGAACAAACAAGAAAC_CCAACACACUCGUCCUAUAAUCAGCGAAACAGCG
.............................................................(((((..........(((((.............)))))))))).....((......)). ( -3.88 =  -4.52 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:11 2006