Locus 4987

Sequence ID	2R_DroMel_CAF1
Location	16,243,766 – 16,243,896
Length	130
Max. P	0.985018

overview

Window 5

Location	16,243,766 – 16,243,862
Length	96
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	81.74
Mean single sequence MFE	-33.15
Consensus MFE	-24.90
Energy contribution	-25.35
Covariance contribution	0.45
Combinations/Pair	1.18
Mean z-score	-2.21
Structure conservation index	0.75
SVM decision value	0.86
SVM RNA-class probability	0.868515
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16243766 96 + 20766785
GC----------ACAAAGCGAACUCAGCUGAUUAAAAAGAUGAGAGCCGCAGGCGUCUUUCAUCUGCUGCCGCUUCGAGUGGCAGCUACCGACUACUGCCAUCUGC
((----------(...(((.......)))........(((((((((.((....)).)))))))))((((((((.....))))))))..........)))....... ( -32.60)
>DroSec_CAF1 23931 96 + 1
GC----------ACAAAGCCAACUCAGCUGAUUAAAAAGAUGAGAGCCGCAGGCGUCUUUCAUCUGCUGCCGCUUCGAGUGGCAGCUACCGACUACAGCUAUAUGC
((----------.....))......(((((.......(((((((((.((....)).)))))))))((((((((.....)))))))).........)))))...... ( -36.20)
>DroSim_CAF1 24178 96 + 1
GC----------ACAAAGCCAACUCAGCUGAUUAAAAAGAUGGGAGCCGCAGGCGUCUUUCAUCUGCUGCCGCUUCGAGUGGCAGCUACCGACUACAGCUAUAUGC
((----------.....))......(((((.......(((((..((.((....)).))..)))))((((((((.....)))))))).........)))))...... ( -35.40)
>DroEre_CAF1 28982 104 + 1
GCACAUUGAGCCACUAAGCCAACUCAGCUGAUUAAAAAGAUGAGAGCCGCAGGCGUCUUUUAUCCGCUGCCGCUUCGAGUGGCAGCUACCAA--ACAGCCAUCUGC
(((..(((.((......)))))....((((........((((((((.((....)).)))))))).((((((((.....))))))))......--.))))....))) ( -33.80)
>DroYak_CAF1 36817 103 + 1
GCACAUUGAGCCACAAAGCCAACUCAGCUGAUUAAAAAGAUGGGAGCCGCAGGCGUCUUUCAUCUGCUGCCGCUUCGAGUGGCAGCUAGCA---ACUGCCAUCUGC
(((..(((.((......)))))....((((.......(((((..((.((....)).))..)))))((((((((.....)))))))))))).---..)))....... ( -35.90)
>DroAna_CAF1 1341 86 + 1
CC----------ACAAAGCCAACUCAGCUGAUUAAAAAGAUCUGAGCUGGCGGCGGCUUUCAUCUGCUGACGCUCCGAGUGGUUCCUGCCAACU----------GG
((----------(....((((.(((((((........))..))))).))))(((((...((((..((....)).....))))...)))))...)----------)) ( -25.00)
>consensus
GC__________ACAAAGCCAACUCAGCUGAUUAAAAAGAUGAGAGCCGCAGGCGUCUUUCAUCUGCUGCCGCUUCGAGUGGCAGCUACCAACUACAGCCAUCUGC
................(((.......)))........(((((((((.((....)).)))))))))((((((((.....)))))))).................... (-24.90 = -25.35 +   0.45)

alignment

secondary structure

dotplot

Window 6

Location	16,243,793 – 16,243,896
Length	103
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	75.72
Mean single sequence MFE	-30.43
Consensus MFE	-23.35
Energy contribution	-23.80
Covariance contribution	0.45
Combinations/Pair	1.21
Mean z-score	-2.21
Structure conservation index	0.77
SVM decision value	1.99
SVM RNA-class probability	0.985018
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16243793 103 + 20766785
AGAUGAGAGCCGCAGGCGUCUUUCAUCUGCUGCCGCUUCGAGUGGCAGCUACCGACUACUGCCAUCUGCUAAGUACACUCGAAAAAAAAAUA-CACAUAAA-AC--A
(((((((((.((....)).)))))))))((((((((.....))))))))...(((.((((((.....))..))))...)))...........-........-..--. ( -31.60)
>DroSec_CAF1 23958 101 + 1
AGAUGAGAGCCGCAGGCGUCUUUCAUCUGCUGCCGCUUCGAGUGGCAGCUACCGACUACAGCUAUAUGCUUAGUACACUCGAAAAAAAAACA-CACA--UA-GA--A
(((((((((.((....)).)))))))))((((((((.....)))))))).....((((.(((.....)))))))..................-....--..-..--. ( -33.80)
>DroSim_CAF1 24205 100 + 1
AGAUGGGAGCCGCAGGCGUCUUUCAUCUGCUGCCGCUUCGAGUGGCAGCUACCGACUACAGCUAUAUGCUUAGUACACUCGAAAA-AACACA-CACA--AU-GA--A
(((((..((.((....)).))..)))))((((((((.....)))))))).....((((.(((.....)))))))...........-......-....--..-..--. ( -33.00)
>DroEre_CAF1 29019 98 + 1
AGAUGAGAGCCGCAGGCGUCUUUUAUCCGCUGCCGCUUCGAGUGGCAGCUACCAA--ACAGCCAUCUGCUUAGUACACUCGCGAA-A-AAUACCUCA--UC-AA--A
.((((((....((((..(.(((((....((((((((.....))))))))....))--).)).)..))))...((......))...-.-.....))))--))-..--. ( -29.70)
>DroYak_CAF1 36854 99 + 1
AGAUGGGAGCCGCAGGCGUCUUUCAUCUGCUGCCGCUUCGAGUGGCAGCUAGCA---ACUGCCAUCUGCUUAGUACACUCGCAAAAA-AAUACUUUA--AGUUA--C
(((((..((.((....)).))..)))))((((((((.....))))))))..((.---...))....(((..((....)).)))....-.........--.....--. ( -29.70)
>DroAna_CAF1 1368 94 + 1
AGAUCUGAGCUGGCGGCGGCUUUCAUCUGCUGACGCUCCGAGUGGUUCCUGCCAACU----------GG-UACUACACUGUGAAAAAAAUCA-UAUGCCAA-GCUGC
((((..((((((....))))))..))))(((...((.....(((((.((........----------))-.)))))..(((((......)))-)).))..)-))... ( -24.80)
>consensus
AGAUGAGAGCCGCAGGCGUCUUUCAUCUGCUGCCGCUUCGAGUGGCAGCUACCAACUACAGCCAUCUGCUUAGUACACUCGAAAAAAAAACA_CACA__AA_GA__A
(((((((((.((....)).)))))))))((((((((.....)))))))).......................................................... (-23.35 = -23.80 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:51 2006