Locus 5052

Sequence ID	2L_DroMel_CAF1
Location	14,482,315 – 14,482,472
Length	157
Max. P	0.782469

overview

Window 4

Location	14,482,315 – 14,482,432
Length	117
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	97.19
Mean single sequence MFE	-31.88
Consensus MFE	-26.41
Energy contribution	-26.22
Covariance contribution	-0.19
Combinations/Pair	1.03
Mean z-score	-2.70
Structure conservation index	0.83
SVM decision value	0.39
SVM RNA-class probability	0.716995
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14482315 117 + 22407834
UUGGGUUCUUUGG---UGUUGCGUUAGUUUGCCGGAUGUUACCCCUUUUCAUACCGGCAACUGACAGUUGGCUUCUAAUAUUUCAAAAUUUGUAACAUUUGUUACACUCAAAUGACAUCA
((((((.....((---(((((((((((((.((((((((...........))).)))))))))))).(((((...)))))............))))))))......))))))......... ( -32.30)
>DroSec_CAF1 6894 117 + 1
UUGGGUUCUUUGG---UGUUGCGUUAGUUUGCCGGAUGUUACCCCUUUUCAUACCGGCAUCUGACAGUUGGCUUCUAAUAUUUCAAAAUUUGUAACAUUUGUUACACUCAAAUGACAUCA
((((((.....((---(((((((((((..(((((((((...........))).)))))).))))).(((((...)))))............))))))))......))))))......... ( -31.00)
>DroEre_CAF1 8350 118 + 1
UUGGGUUCUUUGG--GUGUUGCGUUAGUUGGCCGGAUGUUACCCCUUUUCAUACCGGCAUCUGACAGUUGGCUUCUAAUAUUUCAAAAUUUGUAACAUUUGUUACACUCAAAUGACAUCA
....(((.(((((--((((.(((((((...((((((((...........))).)))))..))))).(((((...))))).....................)).))))))))).))).... ( -32.80)
>DroYak_CAF1 2812 120 + 1
UUGGGUUCUUCGGUGUUGUUGCGUUAGUUUGCCGGAUGUUACCCCUUUUCAUACCGGCAUCUGACAGUUGGCUUCUAAUAUUUCAAAAUUUGUAACAUUUGUUACACUCAAAUGACAUCA
...........(((((..((..(((((..(((((((((...........))).)))))).))))).........................((((((....))))))....))..))))). ( -31.40)
>consensus
UUGGGUUCUUUGG___UGUUGCGUUAGUUUGCCGGAUGUUACCCCUUUUCAUACCGGCAUCUGACAGUUGGCUUCUAAUAUUUCAAAAUUUGUAACAUUUGUUACACUCAAAUGACAUCA
((((((....(((...(((((((((((...((((((((...........))).)))))..))))).(((((...)))))............)))))).)))....))))))......... (-26.41 = -26.22 +  -0.19)

alignment

secondary structure

dotplot

Window 5

Location	14,482,352 – 14,482,472
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	98.19
Mean single sequence MFE	-25.35
Consensus MFE	-24.50
Energy contribution	-25.00
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.91
Structure conservation index	0.97
SVM decision value	0.56
SVM RNA-class probability	0.782469
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14482352 120 + 22407834
ACCCCUUUUCAUACCGGCAACUGACAGUUGGCUUCUAAUAUUUCAAAAUUUGUAACAUUUGUUACACUCAAAUGACAUCAGCUAAUUAGCCCAAGACGGCAACGAAUUUGUUGAUGUUAA
...............(.((((.....)))).)..................((((((....))))))......((((((((((.((((.(((......)))....)))).)))))))))). ( -27.00)
>DroSec_CAF1 6931 120 + 1
ACCCCUUUUCAUACCGGCAUCUGACAGUUGGCUUCUAAUAUUUCAAAAUUUGUAACAUUUGUUACACUCAAAUGACAUCAGCUAAUUAGCCCAAGACGGCAACGAAUUUGUUGAUGUUAA
.............(((((........)))))...................((((((....))))))......((((((((((.((((.(((......)))....)))).)))))))))). ( -26.60)
>DroEre_CAF1 8388 120 + 1
ACCCCUUUUCAUACCGGCAUCUGACAGUUGGCUUCUAAUAUUUCAAAAUUUGUAACAUUUGUUACACUCAAAUGACAUCAGCUAAUUAGCCCGAGACGGCAACGAAUUUGUUGAUGUUAA
.............(((((........)))))...................((((((....))))))......((((((((((.((((.(((......)))....)))).)))))))))). ( -26.60)
>DroYak_CAF1 2852 120 + 1
ACCCCUUUUCAUACCGGCAUCUGACAGUUGGCUUCUAAUAUUUCAAAAUUUGUAACAUUUGUUACACUCAAAUGACAUCAGCUAAUUAGCCCGAGACAGCAACGCAUUUGUUGAUGUUAA
...............((((((.(((((...((..................((((((....))))))(((...((....))(((....)))..)))........))..))))))))))).. ( -21.20)
>consensus
ACCCCUUUUCAUACCGGCAUCUGACAGUUGGCUUCUAAUAUUUCAAAAUUUGUAACAUUUGUUACACUCAAAUGACAUCAGCUAAUUAGCCCAAGACGGCAACGAAUUUGUUGAUGUUAA
.............(((((........)))))...................((((((....))))))......((((((((((.((((.(((......)))....)))).)))))))))). (-24.50 = -25.00 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:40 2006