Locus 6493

Sequence ID	X_DroMel_CAF1
Location	16,290,472 – 16,290,637
Length	165
Max. P	0.739556

overview

Window 5

Location	16,290,472 – 16,290,564
Length	92
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	88.15
Mean single sequence MFE	-21.98
Consensus MFE	-21.46
Energy contribution	-21.42
Covariance contribution	-0.04
Combinations/Pair	1.04
Mean z-score	-1.31
Structure conservation index	0.98
SVM decision value	0.45
SVM RNA-class probability	0.739556
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16290472 92 - 22224390
AAUUCCUUCA-ACCCGAGCCA----GAGCCGUUGUUGAGCAACUCUAUUUGAUAGCAACUUCCCCGGCUACAAAUUCUUAGUGGUUCAAA--UGGCUAU
..........-.....(((((----(((((((((.....))))...(((((.((((..........))))))))).......)))))...--))))).. ( -21.90)
>DroPse_CAF1 5917 91 - 1
--------CAAGUCCGAACAAAGUCCAGCCGUUGUCGAGCAACUCUAUUUGAUAGCAACUUCCCCGGCUACAAAUUCUUAGUGGUUCAGAACUGGCUGU
--------.................((((((((.(.((((.(((..(((((.((((..........)))))))))....))).))))).))).))))). ( -22.30)
>DroSec_CAF1 5123 92 - 1
AAUUCCUACA-AACCGAGCCA----GAGCCGUUGUUGAGCAACUCUAUUUGAUAGCAACUUCCCCGGCUACAAAUUCUUAGUGGUUCAAA--UGGCUAU
..........-.....(((((----(((((((((.....))))...(((((.((((..........))))))))).......)))))...--))))).. ( -21.90)
>DroEre_CAF1 5901 90 - 1
A--UCCCCCA-ACCCGAGCCA----GAGCCGUUGUUGAGCAACUCUAUUUGAUAGCAACUUCCCCGGCUACAAAUUCUUAGUGGUUCAGA--UGGCUAU
.--.......-..........----.(((((((..(((((.(((..(((((.((((..........)))))))))....))).)))))))--))))).. ( -21.90)
>DroYak_CAF1 5128 91 - 1
A--UCCCCCAAACCCGAGCCA----GAGCCGUUGUUGAGCAACUCUAUUUGAUAGCAACUUCCCCGGCUACAAAUUCUUAGUGGUUCAGA--UGGCUAU
.--..................----.(((((((..(((((.(((..(((((.((((..........)))))))))....))).)))))))--))))).. ( -21.90)
>consensus
A__UCCCCCA_ACCCGAGCCA____GAGCCGUUGUUGAGCAACUCUAUUUGAUAGCAACUUCCCCGGCUACAAAUUCUUAGUGGUUCAGA__UGGCUAU
..........................(((((...((((((.(((..(((((.((((..........)))))))))....))).))))))...))))).. (-21.46 = -21.42 +  -0.04)

alignment

secondary structure

dotplot

Window 6

Location	16,290,529 – 16,290,637
Length	108
Sequences	4
Columns	116
Reading direction	forward
Mean pairwise identity	86.10
Mean single sequence MFE	-39.09
Consensus MFE	-27.15
Energy contribution	-29.40
Covariance contribution	2.25
Combinations/Pair	1.03
Mean z-score	-1.52
Structure conservation index	0.69
SVM decision value	0.05
SVM RNA-class probability	0.557709
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16290529 108 + 22224390
GCUCAACAACGGCUCUGGCUCGGGU-UGAAGGAAUUUUUGGAGGUCGAGGGGAGCCAACGACACAACGCAGGCUGCCCC---A----AAAAAACGGGCUAAGAAAUCAGGUUGGGC
(((((((......(((((((((..(-(...((..((....))..))..((((((((..((......))..)))).))))---.----..))..)))))).)))......))))))) ( -36.60)
>DroSec_CAF1 5180 105 + 1
GCUCAACAACGGCUCUGGCUCGGUU-UGUAGGAAUUUUUCGAGGUCGAGGGGUGCCAGCGACACAACGCAGGCUCCCC---------AAAAAACGGGCUUAGAAAUCAGGU-GGGC
(((((........(((((((((...-............(((....)))((((.(((.(((......))).))).))))---------......))))).)))).......)-)))) ( -36.76)
>DroEre_CAF1 5958 104 + 1
GCUCAACAACGGCUCUGGCUCGGGU-UGGGGGA--UCUAGGAGGUCGAGGGGAGCCAACGACACAACGCAGGCUCCCCC---------AAAAACUGGCUAAGAAAUCAGGGUGGCC
.........(.(((((((....(((-..(..((--((.....))))(.((((((((..((......))..)))))))))---------.....)..)))......))))))).).. ( -37.90)
>DroYak_CAF1 5185 114 + 1
GCUCAACAACGGCUCUGGCUCGGGUUUGGGGGA--UCUAGGAGGUCGAGGGGAGCCAACGACACAACGCAGGCUCCCCCCCCAAAAAUAAAAACUGGCUAAGAAAUCAGGGUGGGC
(((((........((((((.(((.(((((((((--((.....))))..((((((((..((......))..)))))))))))))))........)))))).)))........))))) ( -45.09)
>consensus
GCUCAACAACGGCUCUGGCUCGGGU_UGGAGGA__UCUAGGAGGUCGAGGGGAGCCAACGACACAACGCAGGCUCCCCC________AAAAAACGGGCUAAGAAAUCAGGGUGGGC
(((((((......(((((((((.........((.(((...))).))..((((((((..((......))..))))))))...............)))))).)))......))))))) (-27.15 = -29.40 +   2.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:13 2006