Locus 5774

Sequence ID	3R_DroMel_CAF1
Location	15,045,891 – 15,046,044
Length	153
Max. P	0.994654

overview

Window 0

Location	15,045,891 – 15,046,008
Length	117
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	89.31
Mean single sequence MFE	-32.34
Consensus MFE	-23.66
Energy contribution	-24.58
Covariance contribution	0.92
Combinations/Pair	1.10
Mean z-score	-1.83
Structure conservation index	0.73
SVM decision value	0.26
SVM RNA-class probability	0.658240
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15045891 117 - 27905053
AUUGAUUGGCUCUAGCCAAAAUUACCGAUGGUCAUUCUUGCAAGUAGUCUCAAGAUUCCUUGUUUGAAUAGGUGCUGCAUACUUUGGGGCUUGAGUUGAUUGCCUUAGAAAAUGUAA
.....(((((....)))))...(((((.....)((((..(((((.((((....)))).)))))..)))).)))).(((((..((((((((...........))))))))..))))). ( -32.60)
>DroSec_CAF1 48412 117 - 1
AUUGAUUGGCUCUAGCCGAAAUUUCUGAAGGUCAUUCUUGCAAGUGGUCUCAAGAUUCCUUGUUUGAAUAGAUGCUGCAUACUUUGGGGCUUGAGUUGAUUGCUUAAGACCAUGUAA
.....(((((....)))))..........((((((((..(((((..(((....)))..)))))..))))....(((.((.....)).)))((((((.....))))))))))...... ( -34.50)
>DroSim_CAF1 48078 117 - 1
AUUGAUUGGCUCUAGCCAAAAUUACUGAAGGUCAUUCUUGCAAGUAGUCUCAAGAUUCCUUGUUUGAAUGGGUGCUGCAUACUUUGGGGCUUGAGUUGAUUGCCUUAGACCAUGUAA
.....(((((....)))))..........(.((((((..(((((.((((....)))).)))))..)))))).)..(((((..((((((((...........))))))))..))))). ( -34.20)
>DroEre_CAF1 50219 116 - 1
AUUGAUUGGCCUUAGCCAAAAUUACUGAUGGUCAUUCUUGCAAUUAGUCUCAAGAUCCCUUGUUUGAAUAGGUACUGCAUACUUUGGGGCUUGAGUUCAUUGCCU-AGGCCAUGUAG
.....(((((....))))).....(((((((((......(((((.((.((((((.((((..((.((...........)).))...)))))))))))).)))))..-.)))))).))) ( -31.50)
>DroYak_CAF1 72020 112 - 1
GUUAAUUGGCCUUAGCCAAAA----UGAUGGUCAUUCUUGCAAUUAGUCUCAAUAUUCCUUGUUUAAAUAGGUGCUGCAUACUUUGGGGCUUGAGUUCAGUGCCU-AGACCAUGUAA
.....(((((....)))))..----..((((((......((((..(((......)))..)))).....((((..(((...((((........)))).)))..)))-))))))).... ( -28.90)
>consensus
AUUGAUUGGCUCUAGCCAAAAUUACUGAUGGUCAUUCUUGCAAGUAGUCUCAAGAUUCCUUGUUUGAAUAGGUGCUGCAUACUUUGGGGCUUGAGUUGAUUGCCU_AGACCAUGUAA
.....(((((....)))))........((((((......((((.....((((((.((((..((.((...........)).))...))))))))))....))))....)))))).... (-23.66 = -24.58 +   0.92)

alignment

secondary structure

dotplot

Window 1

Location	15,045,931 – 15,046,044
Length	113
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	90.09
Mean single sequence MFE	-30.74
Consensus MFE	-26.27
Energy contribution	-27.39
Covariance contribution	1.12
Combinations/Pair	1.17
Mean z-score	-2.27
Structure conservation index	0.85
SVM decision value	2.50
SVM RNA-class probability	0.994654
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15045931 113 - 27905053
CUGAGAUCUUAUCUCAACAAGUAUCAAUUGGCCACGAUUGAUUGGCUCUAGCCAAAAUUACCGAUGGUCAUUCUUGCAAGUAGUCUCAAGAUUCCUUGUUUGAAUAGGUGCUG
.((((((...))))))...((((((....(((((((.....(((((....)))))......)).)))))((((..(((((.((((....)))).)))))..)))).)))))). ( -36.10)
>DroSec_CAF1 48452 113 - 1
CUGAGAUCUUAUCUCAACAAGUAUCAAUUGGCCUGGAUUGAUUGGCUCUAGCCGAAAUUUCUGAAGGUCAUUCUUGCAAGUGGUCUCAAGAUUCCUUGUUUGAAUAGAUGCUG
.((((((...))))))...((((((....((((((((....(((((....)))))....)))..)))))((((..(((((..(((....)))..)))))..)))).)))))). ( -38.50)
>DroSim_CAF1 48118 113 - 1
CUGAAAUCUUAUCUCAACAAGUAUCAAUUGGCCUGGAUUGAUUGGCUCUAGCCAAAAUUACUGAAGGUCAUUCUUGCAAGUAGUCUCAAGAUUCCUUGUUUGAAUGGGUGCUG
...................((((((....(((((.((((..(((((....))))))))).....)))))((((..(((((.((((....)))).)))))..)))).)))))). ( -30.90)
>DroEre_CAF1 50258 113 - 1
CUGAGAUCUUAUCUCAACAGGUAUCAAUUGGCCUCGAUUGAUUGGCCUUAGCCAAAAUUACUGAUGGUCAUUCUUGCAAUUAGUCUCAAGAUCCCUUGUUUGAAUAGGUACUG
.((((((...))))))...((((((....(((((((.....(((((....)))))......))).))))((((..((((...(((....)))...))))..)))).)))))). ( -28.90)
>DroYak_CAF1 72059 109 - 1
CUCAGAUCUUAUCUCAACAUGUAUCAAUUGGCCUCGGUUAAUUGGCCUUAGCCAAAA----UGAUGGUCAUUCUUGCAAUUAGUCUCAAUAUUCCUUGUUUAAAUAGGUGCUG
..(((..(((((.(.((((((((.....((((((((.....(((((....)))))..----))).)))))....))))(((......)))......)))).).)))))..))) ( -19.30)
>consensus
CUGAGAUCUUAUCUCAACAAGUAUCAAUUGGCCUCGAUUGAUUGGCUCUAGCCAAAAUUACUGAUGGUCAUUCUUGCAAGUAGUCUCAAGAUUCCUUGUUUGAAUAGGUGCUG
.((((((...))))))...((((((....(((((.......(((((....))))).........)))))((((..(((((.((((....)))).)))))..)))).)))))). (-26.27 = -27.39 +   1.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:26 2006