Locus 5509

Sequence ID	2R_DroMel_CAF1
Location	17,656,683 – 17,656,803
Length	120
Max. P	0.997184

overview

Window 1

Location	17,656,683 – 17,656,803
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.00
Mean single sequence MFE	-36.85
Consensus MFE	-35.39
Energy contribution	-35.99
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.01
Structure conservation index	0.96
SVM decision value	2.81
SVM RNA-class probability	0.997184
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17656683 120 + 20766785
UUUCCGUCUUUAUCUGCCUGUGUGGAUAAUGGGACCAGAAACUAAUAAGCAGGUGCCGCCUGGAUGUAGAAAUAUCUGCGGCAACGGACCAAAGAUACAAGUCCCAUUGUUACAGCCAGA
............((((.((((...(((((((((((..............(...((((((..((((((....))))))))))))...).............))))))))))))))).)))) ( -37.93)
>DroSec_CAF1 10226 120 + 1
UCUCCGUCAUUAUCUGCCUGUGUGGAUAAUGGGACCAGAAACUAAUAAGCAGGUGCCGCCUGGAUGUAGAAAUAUCUGCGGCAACGGACCAAAGAUACAAGUCCCAUUGUUACAGCCAGA
............((((.((((...(((((((((((..............(...((((((..((((((....))))))))))))...).............))))))))))))))).)))) ( -37.93)
>DroSim_CAF1 16176 120 + 1
UCUCCGUCUUUAUCUGCCUGUGUGGAUAAUGGGACCAGAAACUAAUAAGCAGGUGCCGCCUGGAUGUAGAAAUAUCUGCGGCAACGGACCAAAGAUACAAGUCCCAUUGUUACAGCCAGA
............((((.((((...(((((((((((..............(...((((((..((((((....))))))))))))...).............))))))))))))))).)))) ( -37.93)
>DroEre_CAF1 10464 120 + 1
UUUCCGUCUUUAUCUGCCUGUGUGGAUAAUGGGACCAGAAACUAAUAAGCAGGUGCCGCCUGGUUGUAGAAAUAUCUGCGGCAACGGACCAAAGAUACAAAUCCCAUUGUUACAGCCAGA
............((((.((((...((((((((((.......((....))..(((.(((....((((((((....))))))))..))))))...........)))))))))))))).)))) ( -35.50)
>DroYak_CAF1 21919 120 + 1
UUUCCGCCUUUAUCUGCCUGUGUGGAUAAUGGGACCAGAAACUAAUAAGCAGGUGCCGCCUGGAUGUAGAAAUAUCUGCGGCAACGGACCAAAGAUACAAAUCCCAUUGUUACAGCCAGA
............((((.((((...((((((((((...............(...((((((..((((((....))))))))))))...)..............)))))))))))))).)))) ( -34.95)
>consensus
UUUCCGUCUUUAUCUGCCUGUGUGGAUAAUGGGACCAGAAACUAAUAAGCAGGUGCCGCCUGGAUGUAGAAAUAUCUGCGGCAACGGACCAAAGAUACAAGUCCCAUUGUUACAGCCAGA
............((((.((((...(((((((((((..............(...((((((..((((((....))))))))))))...).............))))))))))))))).)))) (-35.39 = -35.99 +   0.60)

alignment

secondary structure

dotplot

Window 2

Location	17,656,683 – 17,656,803
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.00
Mean single sequence MFE	-35.94
Consensus MFE	-35.38
Energy contribution	-35.34
Covariance contribution	-0.04
Combinations/Pair	1.03
Mean z-score	-1.60
Structure conservation index	0.98
SVM decision value	1.79
SVM RNA-class probability	0.977257
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17656683 120 - 20766785
UCUGGCUGUAACAAUGGGACUUGUAUCUUUGGUCCGUUGCCGCAGAUAUUUCUACAUCCAGGCGGCACCUGCUUAUUAGUUUCUGGUCCCAUUAUCCACACAGGCAGAUAAAGACGGAAA
((((.((((...(((((((((.(...((..(((..((.(((((.(((........)))...)))))))..)))....))...).)))))))))......)))).))))............ ( -37.00)
>DroSec_CAF1 10226 120 - 1
UCUGGCUGUAACAAUGGGACUUGUAUCUUUGGUCCGUUGCCGCAGAUAUUUCUACAUCCAGGCGGCACCUGCUUAUUAGUUUCUGGUCCCAUUAUCCACACAGGCAGAUAAUGACGGAGA
((((.((((...(((((((((.(...((..(((..((.(((((.(((........)))...)))))))..)))....))...).)))))))))......)))).))))............ ( -37.00)
>DroSim_CAF1 16176 120 - 1
UCUGGCUGUAACAAUGGGACUUGUAUCUUUGGUCCGUUGCCGCAGAUAUUUCUACAUCCAGGCGGCACCUGCUUAUUAGUUUCUGGUCCCAUUAUCCACACAGGCAGAUAAAGACGGAGA
((((.((((...(((((((((.(...((..(((..((.(((((.(((........)))...)))))))..)))....))...).)))))))))......)))).))))............ ( -37.00)
>DroEre_CAF1 10464 120 - 1
UCUGGCUGUAACAAUGGGAUUUGUAUCUUUGGUCCGUUGCCGCAGAUAUUUCUACAACCAGGCGGCACCUGCUUAUUAGUUUCUGGUCCCAUUAUCCACACAGGCAGAUAAAGACGGAAA
((((.((((...((((((((..(...((..(((..((.((((((((....))).(.....))))))))..)))....))...)..))))))))......)))).))))............ ( -33.70)
>DroYak_CAF1 21919 120 - 1
UCUGGCUGUAACAAUGGGAUUUGUAUCUUUGGUCCGUUGCCGCAGAUAUUUCUACAUCCAGGCGGCACCUGCUUAUUAGUUUCUGGUCCCAUUAUCCACACAGGCAGAUAAAGGCGGAAA
((((.((((...((((((((..(...((..(((..((.(((((.(((........)))...)))))))..)))....))...)..))))))))......)))).))))............ ( -35.00)
>consensus
UCUGGCUGUAACAAUGGGACUUGUAUCUUUGGUCCGUUGCCGCAGAUAUUUCUACAUCCAGGCGGCACCUGCUUAUUAGUUUCUGGUCCCAUUAUCCACACAGGCAGAUAAAGACGGAAA
((((.((((...(((((((((.(...((..(((..((.(((((.(((........)))...)))))))..)))....))...).)))))))))......)))).))))............ (-35.38 = -35.34 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:11 2006