Locus 4650

Sequence ID	2L_DroMel_CAF1
Location	13,330,436 – 13,330,567
Length	131
Max. P	0.952357

overview

Window 6

Location	13,330,436 – 13,330,546
Length	110
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	86.00
Mean single sequence MFE	-25.32
Consensus MFE	-19.91
Energy contribution	-21.19
Covariance contribution	1.28
Combinations/Pair	1.04
Mean z-score	-2.10
Structure conservation index	0.79
SVM decision value	1.14
SVM RNA-class probability	0.921272
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13330436 110 - 22407834
ACCCAGCUGCCGAGGGAAUUAGGAGCACCCUUUCCCGAUCCACUUUUUCUGCGCCUUUUCCUCGGCUGAAUUUUAAAAUUAUCACUUUCGCCCAUCGCACAGCGUCGACU
.....(((((((((((((..(((.(((......................))).))))))))))))).......................((.....))..)))....... ( -25.85)
>DroSec_CAF1 43029 110 - 1
ACCCAGCAGCCGAGGGAAUUAGGAGCACCCUUUCCCGAUCCACUUUCCCUGCGCCUUUUCCUCGACUGAAUUUUAAAAUUAUCAUUUUCACCCAUCGCACAGCGUUGACU
......(((.((((((((..(((.(((......................))).))))))))))).)))........................((.(((...))).))... ( -21.65)
>DroSim_CAF1 42330 107 - 1
ACCCAGCAGCCGAGGGAAUUAGGAGCACCCUUUCCCGAUUCACUUUCCCUGCGCCUUUUCCUCGGCUGAAUUUUAAAAUUA---CUUUCGCCCAUCGCACAGCGUCGACU
......((((((((((((..(((.(((......................))).))))))))))))))).............---...(((.....(((...))).))).. ( -27.95)
>DroEre_CAF1 43912 110 - 1
ACCCAGCAGCCGAGGGAAUUAGGAGCACCCUUUCCCAAUCCACUUUCCCUGCGCCUUUUCCUCGGCUGAAUUUUAAAAUUAUCACUUUCGCCCAUCGCACAUCGUCGACU
......((((((((((((..(((.(((......................))).))))))))))))))).....................((.....))............ ( -26.85)
>DroYak_CAF1 42953 85 - 1
ACCCAGCAGCCGAGGGAAUUAGGAGCACCCU-------------------------UUUCCUCGGCUGAAUUUUAAAAUUAUCACUUUCGCCCACCGCACAUCGUCGACU
......((((((((((((..(((.....)))-------------------------)))))))))))).....................((.....))............ ( -24.30)
>consensus
ACCCAGCAGCCGAGGGAAUUAGGAGCACCCUUUCCCGAUCCACUUUCCCUGCGCCUUUUCCUCGGCUGAAUUUUAAAAUUAUCACUUUCGCCCAUCGCACAGCGUCGACU
......((((((((((((..(((.(((......................))).)))))))))))))))...................(((.....((.....)).))).. (-19.91 = -21.19 +   1.28)

alignment

secondary structure

dotplot

Window 7

Location	13,330,475 – 13,330,567
Length	92
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	82.26
Mean single sequence MFE	-29.18
Consensus MFE	-23.17
Energy contribution	-24.53
Covariance contribution	1.36
Combinations/Pair	1.14
Mean z-score	-2.20
Structure conservation index	0.79
SVM decision value	1.42
SVM RNA-class probability	0.952357
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13330475 92 - 22407834
UCAGGGGCAUGUGCACCCAGCACCCAGCUGCCGAGGGAAUUAGGAGCACCCUUUCCCGAUCCACUUUUUCUGCGCCUUU--UCCUCGGCUGAAU--
((((((((....)).)))(((.....)))((((((((((..(((.(((......................))).)))))--)))))))))))..-- ( -31.55)
>DroPse_CAF1 56647 85 - 1
UCAGGGGCAUGUGCACCCAACG------AACAGAGGAUGUUAGAAAUGCCUUUUCC--AUUCCCAAUCUCCGCCCCUGUUUUACU---CUCAAUUU
.(((((((.(((.......)))------......(((.(((.(.((((.......)--))).).))).)))))))))).......---........ ( -20.20)
>DroSec_CAF1 43068 92 - 1
UCAGGGGCAUGUGCACCCAGCACCCAGCAGCCGAGGGAAUUAGGAGCACCCUUUCCCGAUCCACUUUCCCUGCGCCUUU--UCCUCGACUGAAU--
...(((((....)).))).........(((.((((((((..(((.(((......................))).)))))--)))))).)))...-- ( -26.65)
>DroSim_CAF1 42366 92 - 1
UCAGGGGCAUGUGCACCCAGCACCCAGCAGCCGAGGGAAUUAGGAGCACCCUUUCCCGAUUCACUUUCCCUGCGCCUUU--UCCUCGGCUGAAU--
...(((((....)).))).........((((((((((((..(((.(((......................))).)))))--))))))))))...-- ( -33.75)
>DroEre_CAF1 43951 92 - 1
UCAGGGGCAUGUGCACCCAGCACCCAGCAGCCGAGGGAAUUAGGAGCACCCUUUCCCAAUCCACUUUCCCUGCGCCUUU--UCCUCGGCUGAAU--
...(((((....)).))).........((((((((((((..(((.(((......................))).)))))--))))))))))...-- ( -33.75)
>consensus
UCAGGGGCAUGUGCACCCAGCACCCAGCAGCCGAGGGAAUUAGGAGCACCCUUUCCCGAUCCACUUUCCCUGCGCCUUU__UCCUCGGCUGAAU__
...(((((....)).))).........((((((((((....(((.(((......................))).)))....))))))))))..... (-23.17 = -24.53 +   1.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:37 2006