Locus 5015

Sequence ID	3L_DroMel_CAF1
Location	13,766,855 – 13,767,000
Length	145
Max. P	0.907893

overview

Window 5

Location	13,766,855 – 13,766,975
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	79.90
Mean single sequence MFE	-26.66
Consensus MFE	-19.18
Energy contribution	-19.94
Covariance contribution	0.76
Combinations/Pair	1.20
Mean z-score	-1.98
Structure conservation index	0.72
SVM decision value	1.06
SVM RNA-class probability	0.907893
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13766855 120 - 23771897
UACACUUUGCACCUGGGGCGCUUGGCUUGCCGUUAGUCUCUCAACUCAGCUCUCGGUUCCCAAGGCCCACUACGUAGUACCCACUACCAACUACCUACUACCUACUACCUACUACCUACU
...............((((.(((((...((((..((.((........))))..))))..))))))))).....(((((....)))))................................. ( -26.60)
>DroSec_CAF1 13457 99 - 1
UACACUUUGCACCUGGGGCGCUUGGCUUGCCGUUAGUCUCUCAACUCAGC-------UCCCAGGGCCCACUACGUAGUACCCACUACCAACUACUCACUACCCACU--------------
........((.(((((((.(((.((....))(((........)))..)))-------))))))))).......(((((....)))))...................-------------- ( -23.10)
>DroSim_CAF1 8691 120 - 1
UACACUUUGCACCUGGGGCGCUUGGCUUGCCGUUAGUCUCUCAACUCAGCUCUCGGCUCCCAGGGCCCACUACGUAGUACCCACUACCAACUACUCACUACCCACUACCAACUACCUACU
...............((((.(((((...((((..((.((........))))..))))..))))))))).....(((((....)))))................................. ( -27.90)
>DroEre_CAF1 12730 113 - 1
UACACUUUGCACCUGGGGCGCUUGGCUUGCCGUUAGUCUCCCAACUCAGCUCUUGGUUCCCAGGGCCCACUACCCACUACCCACUACCAAGGAUCCAGGACCCACU-------ACCCACU
...........((((((((.(((((...((((..((.((........))))..))))..)))))))))............((........))...)))).......-------....... ( -27.80)
>DroYak_CAF1 10796 101 - 1
UACACUUUGCACCUGGGGCGCUUGGCUUGCCGUUAGUCUCUCAACUCAGCUCUCUGUUCCCAGGGCCCACUAGGCACU-------ACCCACUACCUUGGACCCCGG-------AC-----
............((((((.((((((...(((((((((......))).)))...(((....))))))...))))))...-------..(((......))).))))))-------..----- ( -27.90)
>consensus
UACACUUUGCACCUGGGGCGCUUGGCUUGCCGUUAGUCUCUCAACUCAGCUCUCGGUUCCCAGGGCCCACUACGUAGUACCCACUACCAACUACCCACUACCCACU_______ACC_ACU
.......(((.....((((.(((((...((((..((.((........))))..))))..))))))))).....)))............................................ (-19.18 = -19.94 +   0.76)

alignment

secondary structure

dotplot

Window 6

Location	13,766,895 – 13,767,000
Length	105
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	93.05
Mean single sequence MFE	-33.58
Consensus MFE	-28.48
Energy contribution	-30.32
Covariance contribution	1.84
Combinations/Pair	1.03
Mean z-score	-1.58
Structure conservation index	0.85
SVM decision value	0.95
SVM RNA-class probability	0.888123
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13766895 105 + 23771897
GUACUACGUAGUGGGCCUUGGGAACCGAGAGCUGAGUUGAGAGACUAACGGCAAGCCAAGCGCCCCAGGUGCAAAGUGUAAAUGAAGACUGAUUGCAGUGCACAU
(((((..(((((.((((((((...))))).((((((((....))))..))))..)))..(((((...)))))...................)))))))))).... ( -31.90)
>DroSec_CAF1 13483 98 + 1
GUACUACGUAGUGGGCCCUGGGA-------GCUGAGUUGAGAGACUAACGGCAAGCCAAGCGCCCCAGGUGCAAAGUGUAAAUGAAGACUGAUUGCAGUGCACAU
(((((..(((((..((((((((.-------(((.((((....))))...((....)).)))..)))))).))..(((.(......).))).)))))))))).... ( -33.50)
>DroSim_CAF1 8731 105 + 1
GUACUACGUAGUGGGCCCUGGGAGCCGAGAGCUGAGUUGAGAGACUAACGGCAAGCCAAGCGCCCCAGGUGCAAAGUGUAAAUGAAGACUGAUUGCAGUGCACAU
(((((..(((((..((((((((.((.....((((((((....))))..))))..((...)))))))))).))..(((.(......).))).)))))))))).... ( -34.50)
>DroEre_CAF1 12763 105 + 1
GUAGUGGGUAGUGGGCCCUGGGAACCAAGAGCUGAGUUGGGAGACUAACGGCAAGCCAAGCGCCCCAGGUGCAAAGUGUAAAUGAAGACUGAUUGCAGUGCACAU
..........(((.((((((((......(.(((..(((((....)))))((....)).))).)))))))((((((((.(......).)))..))))))).))).. ( -33.20)
>DroYak_CAF1 10819 103 + 1
--AGUGCCUAGUGGGCCCUGGGAACAGAGAGCUGAGUUGAGAGACUAACGGCAAGCCAAGCGCCCCAGGUGCAAAGUGUAAAUGAAGACUGAUUGCAGUGCACAU
--.(..(((.(.((((.(((....)))...(((.((((....))))...((....)).)))))))))))..)...((((........((((....)))))))).. ( -34.80)
>consensus
GUACUACGUAGUGGGCCCUGGGAACCGAGAGCUGAGUUGAGAGACUAACGGCAAGCCAAGCGCCCCAGGUGCAAAGUGUAAAUGAAGACUGAUUGCAGUGCACAU
..........(((.((((((((........((((((((....))))..))))..((.....))))))))((((((((.(......).)))..))))))).))).. (-28.48 = -30.32 +   1.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:40 2006