Locus 6718

Sequence ID	3L_DroMel_CAF1
Location	17,958,243 – 17,958,337
Length	94
Max. P	0.997225

overview

Window 8

Location	17,958,243 – 17,958,337
Length	94
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	88.87
Mean single sequence MFE	-19.17
Consensus MFE	-17.29
Energy contribution	-17.21
Covariance contribution	-0.08
Combinations/Pair	1.13
Mean z-score	-2.24
Structure conservation index	0.90
SVM decision value	2.82
SVM RNA-class probability	0.997225
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17958243 94 + 23771897
UGCCAUCGAAUUCUGCAAAGAAAAGAUGGCAAUUUGCGAUUAAUAACCAGAAAAUAGCAUUAAAGGAACUGAUGAAAUUGUGGAGUAAUGAUUG
(((((((...((((....))))..))))))).....((((((.((.(((.((.....(((((.......)))))...)).)))..)).)))))) ( -21.40)
>DroSec_CAF1 81045 94 + 1
UGCCAUCGAAUUCUGCAAAGAAAAGAUGGCAAUUUGCGAUUAAUAACCAGAAAAUAGCAUUAAAGAUACUGAUGAAAUUGUGGAGUAAUGAUGG
(((((((...((((....))))..))))))).....(.((((.((.(((.((.....(((((.......)))))...)).)))..)).)))).) ( -19.70)
>DroSim_CAF1 87915 94 + 1
UGCCAUCGAAUUCUGCAAAGAAAAGAUGGCAAUUUGCGAUUAAUAACCAGAAAAUAGCAUUAAAGAUACUGAUGAAAUUGUGGAGUAAUGAUGG
(((((((...((((....))))..))))))).....(.((((.((.(((.((.....(((((.......)))))...)).)))..)).)))).) ( -19.70)
>DroEre_CAF1 83208 88 + 1
UGCCAUCGAAUUCUGCAAAGAAAAGAUGGCAAUUCGCGAUUAAUAAGCAGAAAAUGGCAUAAAAGAUACUGAGGGAAAUGUGGGGUAA------
(((((((...((((....))))..))))))).((((((.((......(((..................)))....)).))))))....------ ( -17.27)
>DroYak_CAF1 87119 84 + 1
UGCCAUCGAAUUCUGCAAAGAGAAGAUGGCAAUUUGCGAUUAAUACCCAGAAAAUAGCAUAAAAGAUACUG----AAAUGUGGAGUAA------
(((((((...((((....))))..)))))))............((((((.(...(((.((.....)).)))----...).))).))).------ ( -17.80)
>consensus
UGCCAUCGAAUUCUGCAAAGAAAAGAUGGCAAUUUGCGAUUAAUAACCAGAAAAUAGCAUUAAAGAUACUGAUGAAAUUGUGGAGUAAUGAU_G
(((((((...((((....))))..))))))).(((((((((......(((..................)))....))))))))).......... (-17.29 = -17.21 +  -0.08)

alignment

secondary structure

dotplot

Window 9

Location	17,958,243 – 17,958,337
Length	94
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	88.87
Mean single sequence MFE	-14.62
Consensus MFE	-12.50
Energy contribution	-12.54
Covariance contribution	0.04
Combinations/Pair	1.06
Mean z-score	-1.99
Structure conservation index	0.85
SVM decision value	1.73
SVM RNA-class probability	0.974599
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17958243 94 - 23771897
CAAUCAUUACUCCACAAUUUCAUCAGUUCCUUUAAUGCUAUUUUCUGGUUAUUAAUCGCAAAUUGCCAUCUUUUCUUUGCAGAAUUCGAUGGCA
.........................((....(((((((((.....))).))))))..))....(((((((..((((....))))...))))))) ( -14.10)
>DroSec_CAF1 81045 94 - 1
CCAUCAUUACUCCACAAUUUCAUCAGUAUCUUUAAUGCUAUUUUCUGGUUAUUAAUCGCAAAUUGCCAUCUUUUCUUUGCAGAAUUCGAUGGCA
.........................((....(((((((((.....))).))))))..))....(((((((..((((....))))...))))))) ( -14.10)
>DroSim_CAF1 87915 94 - 1
CCAUCAUUACUCCACAAUUUCAUCAGUAUCUUUAAUGCUAUUUUCUGGUUAUUAAUCGCAAAUUGCCAUCUUUUCUUUGCAGAAUUCGAUGGCA
.........................((....(((((((((.....))).))))))..))....(((((((..((((....))))...))))))) ( -14.10)
>DroEre_CAF1 83208 88 - 1
------UUACCCCACAUUUCCCUCAGUAUCUUUUAUGCCAUUUUCUGCUUAUUAAUCGCGAAUUGCCAUCUUUUCUUUGCAGAAUUCGAUGGCA
------.............................(((((((((((((.........((.....))............))))))...))))))) ( -14.60)
>DroYak_CAF1 87119 84 - 1
------UUACUCCACAUUU----CAGUAUCUUUUAUGCUAUUUUCUGGGUAUUAAUCGCAAAUUGCCAUCUUCUCUUUGCAGAAUUCGAUGGCA
------.(((.(((.....----.(((((.....)))))......))))))............(((((((((((......))))...))))))) ( -16.20)
>consensus
C_AUCAUUACUCCACAAUUUCAUCAGUAUCUUUAAUGCUAUUUUCUGGUUAUUAAUCGCAAAUUGCCAUCUUUUCUUUGCAGAAUUCGAUGGCA
...................................(((.(((...........))).)))...(((((((..((((....))))...))))))) (-12.50 = -12.54 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:21 2006