Locus 6863

Sequence ID	2L_DroMel_CAF1
Location	19,196,049 – 19,196,190
Length	141
Max. P	0.717610

overview

Window 1

Location	19,196,049 – 19,196,164
Length	115
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	91.10
Mean single sequence MFE	-31.12
Consensus MFE	-22.26
Energy contribution	-24.82
Covariance contribution	2.56
Combinations/Pair	1.03
Mean z-score	-1.95
Structure conservation index	0.72
SVM decision value	0.04
SVM RNA-class probability	0.554684
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19196049 115 + 22407834
GCCCAG-AAACCCCACCCAUGGCCAAUCCUAAGCAGACCAUUUGCUUGUCCCUGUCUGGUGGUCUGGUGGUGGUCGGUCCACCGCCCUCGCUUUAUGACUUACCAUAAAUUUUAUG
((....-.....(((((...(((......((((((((...)))))))).....))).)))))...((((((((.....))))))))...))((((((......))))))....... ( -33.70)
>DroSec_CAF1 15937 115 + 1
GCCCAG-AAACCCCACCCAUGGGCAAUCCUAAGCAGACCAUUUGCUUGUCCCUGCCUGGUGGUCUGGUGGUGGUCGGUCCACCGCCCUCGCUUUAUGACUUACCAUAAAUUUUAUG
(((((.-............))))).......(((((((((((.((........))..))))))))((((((((.....))))))))...)))(((((......)))))........ ( -39.92)
>DroSim_CAF1 17133 115 + 1
GCCCAG-AAACCCCACCCAUGGCCAAUCCUAAGCAGACCAUUUGCUUGUCCCUGCCUGGUGGUCUGGUGGUGGUCGGUCCACCGCCCUCGCUUUAUGACUUACCAUAAAUUUUAUG
((....-.....(((((...(((......((((((((...)))))))).....))).)))))...((((((((.....))))))))...))((((((......))))))....... ( -36.40)
>DroEre_CAF1 16109 105 + 1
CCCCAA---ACCCCACCCAGGGCCAAUCCUAAGCAGCCCAUUUGCUUGUCCCUGUCU--------CGUGGUGGUCGGUCCACCGCCCUCGCUUUAUGACUUACCAUAAAUUUUAUG
......---........(((((.((......(((((.....))))))).)))))...--------.(((((((.....)))))))......((((((......))))))....... ( -25.20)
>DroYak_CAF1 17256 108 + 1
CCCCAAAAAACCCCACCCAUUGCCAAUCCUAAGCAGCCCAUUUGCUUGUCCCUGCCU--------CGUGGUGGUCGGUCCACCGCCCUCGCUUUAUGACUUACCAUAAAUUUUAUG
.....................((......(((((((.....))))))).........--------.(((((((.....)))))))....))((((((......))))))....... ( -20.40)
>consensus
GCCCAG_AAACCCCACCCAUGGCCAAUCCUAAGCAGACCAUUUGCUUGUCCCUGCCUGGUGGUCUGGUGGUGGUCGGUCCACCGCCCUCGCUUUAUGACUUACCAUAAAUUUUAUG
............(((((...(((......(((((((.....))))))).....))).)))))...((((((((.....)))))))).....((((((......))))))....... (-22.26 = -24.82 +   2.56)

alignment

secondary structure

dotplot

Window 2

Location	19,196,085 – 19,196,190
Length	105
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	93.09
Mean single sequence MFE	-29.74
Consensus MFE	-23.46
Energy contribution	-24.34
Covariance contribution	0.88
Combinations/Pair	1.06
Mean z-score	-1.67
Structure conservation index	0.79
SVM decision value	0.39
SVM RNA-class probability	0.717610
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19196085 105 + 22407834
CCAUUUGCUUGUCCCUGUCUGGUGGUCUGGUGGUGGUCGGUCCACCGCCCUCGCUUUAUGACUUACCAUAAAUUUUAUGACAGCGCCUAGACACCGAUAUACAGA
...((((..((((..((((((((((((.((((((((.....)))))))).....((((((......))))))......)))..)))).)))))..))))..)))) ( -36.00)
>DroSec_CAF1 15973 105 + 1
CCAUUUGCUUGUCCCUGCCUGGUGGUCUGGUGGUGGUCGGUCCACCGCCCUCGCUUUAUGACUUACCAUAAAUUUUAUGACAGCGCCUAGACACCGAUAUACAGA
...((((..((((..((.(((((((((.((((((((.....)))))))).....((((((......))))))......)))..)))).)).))..))))..)))) ( -31.00)
>DroSim_CAF1 17169 105 + 1
CCAUUUGCUUGUCCCUGCCUGGUGGUCUGGUGGUGGUCGGUCCACCGCCCUCGCUUUAUGACUUACCAUAAAUUUUAUGACAGCGCCUAGACACCGAUAUACAGA
...((((..((((..((.(((((((((.((((((((.....)))))))).....((((((......))))))......)))..)))).)).))..))))..)))) ( -31.00)
>DroEre_CAF1 16143 97 + 1
CCAUUUGCUUGUCCCUGUCU--------CGUGGUGGUCGGUCCACCGCCCUCGCUUUAUGACUUACCAUAAAUUUUAUGACAGUGCCUAGACGGCGAUAUACAGA
...((((..((((.(((((.--------.(((((((.....)))))))......((((((......))))))......))))).(((.....)))))))..)))) ( -29.20)
>DroYak_CAF1 17293 97 + 1
CCAUUUGCUUGUCCCUGCCU--------CGUGGUGGUCGGUCCACCGCCCUCGCUUUAUGACUUACCAUAAAUUUUAUGACAGCGCCUAGACACCGAUAUACAGA
......(((.(((...((..--------.(((((((.....)))))))....))((((((......))))))......))))))..................... ( -21.50)
>consensus
CCAUUUGCUUGUCCCUGCCUGGUGGUCUGGUGGUGGUCGGUCCACCGCCCUCGCUUUAUGACUUACCAUAAAUUUUAUGACAGCGCCUAGACACCGAUAUACAGA
...((((..((((..((.((((......((((((((.....))))))))..((((((((((.............)))))).)))).)))).))..))))..)))) (-23.46 = -24.34 +   0.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:34 2006