Locus 5098

Sequence ID	2L_DroMel_CAF1
Location	14,527,270 – 14,527,382
Length	112
Max. P	0.980640

overview

Window 4

Location	14,527,270 – 14,527,382
Length	112
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	96.60
Mean single sequence MFE	-28.06
Consensus MFE	-24.80
Energy contribution	-25.20
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.66
Structure conservation index	0.88
SVM decision value	1.26
SVM RNA-class probability	0.937533
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14527270 112 + 22407834
AGACGUGGCAAGACCAGACCCAAUGUCACAACAAUCUCCAAUCUCCAAUCGAUUCCCAGCACAAUUGCUGUUGAUUAAGAUGCUGAUGGUGCCCCCUGGCCACAUCGCUCUC
.((.(((((.(((((.(((.....)))......(((....((((..((((((....(((((....))))))))))).))))...)))))).....)).))))).))...... ( -27.10)
>DroSec_CAF1 59279 112 + 1
AGACGUGGCAAGACCAGACCCAAUGUCACAACAAUCUCCAAUCUCCAAUCGAUUCCCAGCACAAUUGCUGUUGAUUAAGAUGCUGAUGGUGCCCCCUGGCCACAUCGCCCUC
.((.(((((.(((((.(((.....)))......(((....((((..((((((....(((((....))))))))))).))))...)))))).....)).))))).))...... ( -27.10)
>DroSim_CAF1 44659 112 + 1
AGACGUGGCAAGACCAGACCCAAUGUCACAACAAUCUCCAAUCUCCAAUCGAUUCCCAGCACAAUUGCUGUUGAUUAAGAUGCUGAUGGUGCCCCCUGGCCACAUCGCCCUC
.((.(((((.(((((.(((.....)))......(((....((((..((((((....(((((....))))))))))).))))...)))))).....)).))))).))...... ( -27.10)
>DroEre_CAF1 54328 111 + 1
AGAUGUGGCAAGAGCAGAGCCAAUGUCACAACAAUCUCCAAUCUCCAUUCGAUUCCCAGCACAAUUGCUGUUGAUUAAGAUGCUGAUGGUGCCCCA-GGCCACAUCGCUCUC
.((((((((..(.(((.......(((....)))....(((.((..((((.((((..(((((....)))))..))))..))))..)))))))).)..-.))))))))...... ( -31.50)
>DroYak_CAF1 49435 111 + 1
AGACGUGGCAAGACCAGACCCAAUGUCACAACAAUCUCCAAUCUCCAAUCGAUUCCCAGCACAAUUGCUGUUGAUUAAGAUGCUGAUGGUGCCCCA-UGCCACAUCGCUCUC
.((.((((((.((((.(((.....)))......(((....((((..((((((....(((((....))))))))))).))))...))))))....).-)))))).))...... ( -27.50)
>consensus
AGACGUGGCAAGACCAGACCCAAUGUCACAACAAUCUCCAAUCUCCAAUCGAUUCCCAGCACAAUUGCUGUUGAUUAAGAUGCUGAUGGUGCCCCCUGGCCACAUCGCUCUC
.((.(((((.......(((.....)))...((.(((....((((..((((((....(((((....))))))))))).))))...))).))........))))).))...... (-24.80 = -25.20 +   0.40)

alignment

secondary structure

dotplot

Window 5

Location	14,527,270 – 14,527,382
Length	112
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	96.60
Mean single sequence MFE	-38.72
Consensus MFE	-35.14
Energy contribution	-35.98
Covariance contribution	0.84
Combinations/Pair	1.03
Mean z-score	-1.76
Structure conservation index	0.91
SVM decision value	1.87
SVM RNA-class probability	0.980640
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14527270 112 - 22407834
GAGAGCGAUGUGGCCAGGGGGCACCAUCAGCAUCUUAAUCAACAGCAAUUGUGCUGGGAAUCGAUUGGAGAUUGGAGAUUGUUGUGACAUUGGGUCUGGUCUUGCCACGUCU
......((((((((.(((((((.(((....(((..(((((..(((((....)))))..((((.......))))...)))))..)))....)))))))..))).)))))))). ( -38.50)
>DroSec_CAF1 59279 112 - 1
GAGGGCGAUGUGGCCAGGGGGCACCAUCAGCAUCUUAAUCAACAGCAAUUGUGCUGGGAAUCGAUUGGAGAUUGGAGAUUGUUGUGACAUUGGGUCUGGUCUUGCCACGUCU
......((((((((.(((((((.(((....(((..(((((..(((((....)))))..((((.......))))...)))))..)))....)))))))..))).)))))))). ( -38.50)
>DroSim_CAF1 44659 112 - 1
GAGGGCGAUGUGGCCAGGGGGCACCAUCAGCAUCUUAAUCAACAGCAAUUGUGCUGGGAAUCGAUUGGAGAUUGGAGAUUGUUGUGACAUUGGGUCUGGUCUUGCCACGUCU
......((((((((.(((((((.(((....(((..(((((..(((((....)))))..((((.......))))...)))))..)))....)))))))..))).)))))))). ( -38.50)
>DroEre_CAF1 54328 111 - 1
GAGAGCGAUGUGGCC-UGGGGCACCAUCAGCAUCUUAAUCAACAGCAAUUGUGCUGGGAAUCGAAUGGAGAUUGGAGAUUGUUGUGACAUUGGCUCUGCUCUUGCCACAUCU
......((((((((.-.(((((((((....(((..(((((..(((((....)))))..((((.......))))...)))))..)))....)))...)))))).)))))))). ( -40.00)
>DroYak_CAF1 49435 111 - 1
GAGAGCGAUGUGGCA-UGGGGCACCAUCAGCAUCUUAAUCAACAGCAAUUGUGCUGGGAAUCGAUUGGAGAUUGGAGAUUGUUGUGACAUUGGGUCUGGUCUUGCCACGUCU
......(((((((((-(.((((.(((....(((..(((((..(((((....)))))..((((.......))))...)))))..)))....))))))).)...))))))))). ( -38.10)
>consensus
GAGAGCGAUGUGGCCAGGGGGCACCAUCAGCAUCUUAAUCAACAGCAAUUGUGCUGGGAAUCGAUUGGAGAUUGGAGAUUGUUGUGACAUUGGGUCUGGUCUUGCCACGUCU
......((((((((.(((((((.(((....(((..(((((..(((((....)))))..((((.......))))...)))))..)))....)))))))..))).)))))))). (-35.14 = -35.98 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:55 2006