Locus 2418

Sequence ID	X_DroMel_CAF1
Location	6,468,666 – 6,468,786
Length	120
Max. P	0.999025

overview

Window 2

Location	6,468,666 – 6,468,786
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	87.91
Mean single sequence MFE	-25.20
Consensus MFE	-21.32
Energy contribution	-21.28
Covariance contribution	-0.04
Combinations/Pair	1.24
Mean z-score	-2.99
Structure conservation index	0.85
SVM decision value	3.33
SVM RNA-class probability	0.999025
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6468666 120 + 22224390
UUUCCAUUCAUACAUAUACAUGCAUAUAACCAAGUUAAGGUAGAUUGAAAAUAAGUAGUCCAGUGUUGUAUGCAAAUAAAUACUAUUACUUAUCAGCAGUACUUUUUGACACUUGGUUGU
.........................(((((((((((((((...((((...(((((((((..((((((.(((....))))))))))))))))))...))))...)))))..)))))))))) ( -25.90)
>DroSec_CAF1 22911 112 + 1
UUUCCAUUCAUACAUAU--------AUAACCAAGCUAAAGUAGAUUGAAAAUAAGUAGUCCAGUGUUGUAUGCAAAUAAUUACUACUACUUAUCAGCAAUACUUUUUGACACUUGGUUGU
.................--------(((((((((.(((((...((((...(((((((((..((((...(((....)))..)))))))))))))...))))...)))))...))))))))) ( -25.50)
>DroSim_CAF1 23372 112 + 1
UUUCCAUUCAUACAUAU--------AUAACCAAGCUAAAGUAGAUUGAAAAUAAGUAGUCCAGUGUUGUAUGCAAAUAAUUACUACUACUUAUCAGCACUACUUUUUGACACUUGGUUGU
.................--------(((((((((..(((((((..((...(((((((((..((((...(((....)))..)))))))))))))...)))))))))......))))))))) ( -27.00)
>DroEre_CAF1 22088 110 + 1
UCUUCGUUCAUA--UAU--------AUAACCAAGCUAAAGUAGAUUACUAAAAAGUAGUCCAGUGCUGUAUGCAAAUAAUUACUACUACUUAUCAGCACUACUCUUUGACACUUGGUUAU
............--...--------(((((((((.(((((..(((((((....))))))).(((((((.........................)))))))...)))))...))))))))) ( -25.61)
>DroYak_CAF1 22649 108 + 1
UUUCCAUUCAUA----U--------GUAACCAAGUUAAAGUAGAGUAAAAAUAAGCAGUCCAGUGCUGUAUGCAAAUAAUUACUACUACUUAUCAGCACUACUUUUUGACAUUUGGUUAU
............----.--------((((((((((.(((((((.((....(((((.(((..((((...(((....)))..))))))).)))))..)).))))))).....)))))))))) ( -22.00)
>consensus
UUUCCAUUCAUACAUAU________AUAACCAAGCUAAAGUAGAUUGAAAAUAAGUAGUCCAGUGUUGUAUGCAAAUAAUUACUACUACUUAUCAGCACUACUUUUUGACACUUGGUUGU
.........................(((((((((.(((((...((((...(((((((((..((((...(((....)))..)))))))))))))...))))...)))))...))))))))) (-21.32 = -21.28 +  -0.04)

alignment

secondary structure

dotplot

Window 3

Location	6,468,666 – 6,468,786
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	87.91
Mean single sequence MFE	-27.14
Consensus MFE	-23.08
Energy contribution	-23.68
Covariance contribution	0.60
Combinations/Pair	1.12
Mean z-score	-2.82
Structure conservation index	0.85
SVM decision value	3.16
SVM RNA-class probability	0.998613
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6468666 120 - 22224390
ACAACCAAGUGUCAAAAAGUACUGCUGAUAAGUAAUAGUAUUUAUUUGCAUACAACACUGGACUACUUAUUUUCAAUCUACCUUAACUUGGUUAUAUGCAUGUAUAUGUAUGAAUGGAAA
..((((((((........(((.(((.((((((((....)))))))).)))))).....((((.........))))..........)))))))).(((((((....)))))))........ ( -22.90)
>DroSec_CAF1 22911 112 - 1
ACAACCAAGUGUCAAAAAGUAUUGCUGAUAAGUAGUAGUAAUUAUUUGCAUACAACACUGGACUACUUAUUUUCAAUCUACUUUAGCUUGGUUAU--------AUAUGUAUGAAUGGAAA
..((((((((.....(((((((((..((((((((((.((((....))))...((....)).))))))))))..)))..)))))).))))))))..--------................. ( -26.80)
>DroSim_CAF1 23372 112 - 1
ACAACCAAGUGUCAAAAAGUAGUGCUGAUAAGUAGUAGUAAUUAUUUGCAUACAACACUGGACUACUUAUUUUCAAUCUACUUUAGCUUGGUUAU--------AUAUGUAUGAAUGGAAA
..((((((((.....(((((((((..((((((((((.((((....))))...((....)).))))))))))..))..))))))).))))))))..--------................. ( -28.50)
>DroEre_CAF1 22088 110 - 1
AUAACCAAGUGUCAAAGAGUAGUGCUGAUAAGUAGUAGUAAUUAUUUGCAUACAGCACUGGACUACUUUUUAGUAAUCUACUUUAGCUUGGUUAU--------AUA--UAUGAACGAAGA
((((((((((.....(((((((((((((.(((((((.((((....))))...((....)).))))))).))))))..))))))).))))))))))--------...--............ ( -33.10)
>DroYak_CAF1 22649 108 - 1
AUAACCAAAUGUCAAAAAGUAGUGCUGAUAAGUAGUAGUAAUUAUUUGCAUACAGCACUGGACUGCUUAUUUUUACUCUACUUUAACUUGGUUAC--------A----UAUGAAUGGAAA
.(((((((..((...(((((((.(..((((((((((.((((....))))...((....)).))))))))))....).))))))).))))))))).--------.----............ ( -24.40)
>consensus
ACAACCAAGUGUCAAAAAGUAGUGCUGAUAAGUAGUAGUAAUUAUUUGCAUACAACACUGGACUACUUAUUUUCAAUCUACUUUAGCUUGGUUAU________AUAUGUAUGAAUGGAAA
..((((((((.....(((((((((..((((((((((.((((....))))...((....)).))))))))))..))..))))))).))))))))........................... (-23.08 = -23.68 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:00 2006