Locus 3927

Sequence ID	X_DroMel_CAF1
Location	10,483,933 – 10,484,205
Length	272
Max. P	0.976619

overview

Window 9

Location	10,483,933 – 10,484,053
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.92
Mean single sequence MFE	-24.22
Consensus MFE	-19.74
Energy contribution	-20.18
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-1.35
Structure conservation index	0.82
SVM decision value	0.01
SVM RNA-class probability	0.539581
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10483933 120 + 22224390
GAAUGUUUCGCCUACAUUUUAUUACCUCCAUUCAUUGUCAUGGUCGGCCCUCUUUUCUGGCAUUUAGAUGCAUUCGGUUACGCUUCCUUUGGAGGCACUUCCUCAUCACGCCAUUCCAUC
((((((.((...............(..((((........))))..)(((.........))).....)).))))))((....((((((...))))))....)).................. ( -23.70)
>DroSec_CAF1 14695 120 + 1
GAAUGUUUCGCGUACAUUUUAUUACCUCCAUUCAUUGUCAUGGUCGGCCCUCUUUUCUGGCAUUUAGCUGCAUUCGGUAACGCUUCCUUUGGAGGCACUUACUCAUCGCGCCAUUCCAUC
(((((...((((.........(((((.((((........))))...(((.........)))..............))))).((((((...))))))..........)))).))))).... ( -26.40)
>DroSim_CAF1 14888 120 + 1
GAAUGUUUCGCCUACAUUUUAUUACCUCCAUUCAUUGUCAUGGUCGGCCCUCUUUUCUGGCAUUUAGCUGCAUUCGGUAACGCUUCCUUUGGAGGCACUUCCUCAUCGCGCCAUUCCAUC
(((((...(((..........(((((.((((........))))...(((.........)))..............))))).((((((...))))))...........))).))))).... ( -24.40)
>DroEre_CAF1 16169 120 + 1
GAAUGUUUUGCCCCCACUUUAUUACCUCCAUUCAUUGUCAUGGUCGGCCUUCUUUACUGGCAUUUAGCUGCAUACGGUUACGCUUCCUUUGGAGGCACUUCCUCAUCACGCCGUUCCAUC
(((((.......................)))))......((((.((((................((((((....)))))).((((((...)))))).............))))..)))). ( -24.30)
>DroYak_CAF1 16857 120 + 1
GAAUGUUUCUCCUUCAUUUUAUUACCUCCAUUCAUUAUCCUGGUCGGCCUUCUUUUCUGGCAUUUAGCGGCAUUCGGUUACGCUUCCCUUGGAGGCACUUCCUCAUCACUCCAUUCCAUC
((((((..((..............(..(((..........)))..)(((.........)))....))..))))))((....((((((...))))))....)).................. ( -22.30)
>consensus
GAAUGUUUCGCCUACAUUUUAUUACCUCCAUUCAUUGUCAUGGUCGGCCCUCUUUUCUGGCAUUUAGCUGCAUUCGGUUACGCUUCCUUUGGAGGCACUUCCUCAUCACGCCAUUCCAUC
((((((..(...............(..((((........))))..)(((.........))).....)..))))))((....((((((...))))))....)).................. (-19.74 = -20.18 +   0.44)

alignment

secondary structure

dotplot

Window 0

Location	10,484,013 – 10,484,128
Length	115
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.01
Mean single sequence MFE	-33.26
Consensus MFE	-26.46
Energy contribution	-26.94
Covariance contribution	0.48
Combinations/Pair	1.07
Mean z-score	-2.42
Structure conservation index	0.80
SVM decision value	1.77
SVM RNA-class probability	0.976619
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10484013 115 + 22224390
CGCUUCCUUUGGAGGCACUUCCUCAUCACGCCAUUCCAUCACCA-GCCAAGUUGCCACUUGGCC----AUAGACUCGGCUUUGCCUCUGACAUUGUGGCUUUUAAAUUGCUUAUUUGGCU
.((((((...)))))).............(((((....(((...-(((((((....))))))).----........(((...)))..)))....))))).........(((.....))). ( -30.70)
>DroSec_CAF1 14775 116 + 1
CGCUUCCUUUGGAGGCACUUACUCAUCGCGCCAUUCCAUCAUCAGGCCAAGUUGCCACUUGGCC----ACAGACUCGGCUUUGCCUCUGACAUUGUGGCUUUUAAAUUGCUUAUUUGGCU
.((((((...)))))).............(((((..........((((((((....))))))))----.((((...(((...))))))).....))))).........(((.....))). ( -36.10)
>DroSim_CAF1 14968 116 + 1
CGCUUCCUUUGGAGGCACUUCCUCAUCGCGCCAUUCCAUCAUCAGGCCAAGUUGCCACUUGGCC----ACAGACUCGGCUUUGCCUCUGACAUUGUGGCUUUUAAAUUGCUUAUUUGGCU
.((((((...)))))).............(((((..........((((((((....))))))))----.((((...(((...))))))).....))))).........(((.....))). ( -36.10)
>DroEre_CAF1 16249 115 + 1
CGCUUCCUUUGGAGGCACUUCCUCAUCACGCCGUUCCAUCACCA-GCCAAGUUGCCACUUGGCC----GCAGACUCGUCUUUGCCUCUGACAUUGUGGCUUUUAAAUUGCUUAUUUGGCU
.((((((...))))))...........................(-(((((((.((.....((((----((((....(((.........))).))))))))........))..)))))))) ( -30.42)
>DroYak_CAF1 16937 118 + 1
CGCUUCCCUUGGAGGCACUUCCUCAUCACUCCAUUCCAUCGCCA-GCCAAGUUGUCUG-UGGCCAAGUACAGACUCGGCUUUGCCUCUGACAUUGUGGCUUUUAAAUUGCUUAUUUGGCU
.((((((...))))))........................((((-((((...((((.(-.(((.((((.........)))).))).).))))...)))))...((((.....))))))). ( -33.00)
>consensus
CGCUUCCUUUGGAGGCACUUCCUCAUCACGCCAUUCCAUCACCA_GCCAAGUUGCCACUUGGCC____ACAGACUCGGCUUUGCCUCUGACAUUGUGGCUUUUAAAUUGCUUAUUUGGCU
.((((((...)))))).............(((((...........((((((......))))))......((((...(((...))))))).....))))).........(((.....))). (-26.46 = -26.94 +   0.48)

alignment

secondary structure

dotplot

Window 1

Location	10,484,088 – 10,484,205
Length	117
Sequences	4
Columns	117
Reading direction	reverse
Mean pairwise identity	94.85
Mean single sequence MFE	-29.70
Consensus MFE	-27.04
Energy contribution	-27.35
Covariance contribution	0.31
Combinations/Pair	1.03
Mean z-score	-1.50
Structure conservation index	0.91
SVM decision value	0.16
SVM RNA-class probability	0.610230
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10484088 117 - 22224390
GGUUAUUAAACUGCUCGGCACGUUGCGGUUAGCCAACAGAACAGCGCUGACAACAACGACGACGACGACGAGGACUAAGCCAAAUAAGCAAUUUAAAAGCCACAAUGUCAGAGGCAA
((((.(((((.((((.(((.(((((..(((((((.........).))))))..))))).((....))...........))).....)))).))))).))))....(((.....))). ( -30.90)
>DroSec_CAF1 14851 117 - 1
GGUUAUUAAACUGCUCGGCACGUUGCGGUUAGCCAACAGAACAGCGCUGACAACAACGACGACGACGACGAGGACUAAGCCAAAUAAGCAAUUUAAAAGCCACAAUGUCAGAGGCAA
((((.(((((.((((.(((.(((((..(((((((.........).))))))..))))).((....))...........))).....)))).))))).))))....(((.....))). ( -30.90)
>DroEre_CAF1 16324 114 - 1
GGUUAUUAAACUGCUCGGCACGUUGCGGUUAGCCAACAGAACGGCGCUGACAAGAACGACG---ACGACGAGGACUAAGCCAAAUAAGCAAUUUAAAAGCCACAAUGUCAGAGGCAA
((((.(((((.((((((...(((((((....(((........))).((....))..)).))---))).)))((......))......))).))))).))))....(((.....))). ( -27.20)
>DroYak_CAF1 17015 114 - 1
GGUUAUUAAAAUGCUCGGCGUGUUGCGGUUAGCCAACAGAACAGCGCUGACAACAAAGACG---ACGACGGGUACUAAGCCAAAUAAGCAAUUUAAAAGCCACAAUGUCAGAGGCAA
((((.(((((.((((((.(((.(((..(((((((.........).))))))..)))..)))---.)))..(((.....)))......))).))))).))))....(((.....))). ( -29.80)
>consensus
GGUUAUUAAACUGCUCGGCACGUUGCGGUUAGCCAACAGAACAGCGCUGACAACAACGACG___ACGACGAGGACUAAGCCAAAUAAGCAAUUUAAAAGCCACAAUGUCAGAGGCAA
((((.(((((.((((.(((.(((((..(((((((.........).))))))..))))).((....))...........))).....)))).))))).))))....(((.....))). (-27.04 = -27.35 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:01 2006