Locus 9074

Sequence ID	3R_DroMel_CAF1
Location	24,239,590 – 24,239,709
Length	119
Max. P	0.949031

overview

Window 9

Location	24,239,590 – 24,239,709
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	79.56
Mean single sequence MFE	-27.44
Consensus MFE	-12.78
Energy contribution	-14.74
Covariance contribution	1.96
Combinations/Pair	1.12
Mean z-score	-1.96
Structure conservation index	0.47
SVM decision value	0.00
SVM RNA-class probability	0.535595
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24239590 119 + 27905053
UGCAUGUGCAUGCUUAAAUGCAAUUAAAGGGUGUCGAAA-AGAAUGCAGUGAAAACACAUAGUUGCAUACUCUCCAGAAGCAUUGAGUGAAAAUAUAUGGUUGCAUACUUUUCAACACCU
......(((((......)))))......((((((.((((-((.(((((((....)).((((......(((((............)))))......))))..))))).)))))).)))))) ( -34.20)
>DroSec_CAF1 62238 120 + 1
UGCAUGUGCAUGCUUAAAUGCAAUAAAAGGGUGUCAAAUAGGAAUGCAGUGAAAACACAUAGUUGCAUACUCUCGAGAAGCAUUGAGUGAAAAUAUAUGGUUGCAUGCUUUUCAACACCU
......(((((......)))))......((((((......((.((((((((....))).....))))).))...(((((((((...(..(..(....)..)..)))))))))).)))))) ( -27.40)
>DroSim_CAF1 66740 111 + 1
UGCAUGC---------AAUGCAAUUAAAGGGUGUCAAAUAGGAAUGCAGUGAAAACACAUAGUUGCAUACUCUCGAGAAGGAUUGAGUGAAAAUAUAUGGUUGCAUACUUUUCAACACCU
(((((..---------.)))))......((((((.....(((.(((((((....)).((((......(((((............)))))......))))..))))).)))....)))))) ( -24.80)
>DroEre_CAF1 67536 111 + 1
U----AUGC----UUGAAUGUAAUUAUGUGCAGUCAAAA-AGAAUGCUGUGAAAAUACAUAGUUGCUUACUCUCGAAGAGCAUCGAGUGAAAAUAUAUGUUUGCAUACUUUUCGACACCU
.----..((----((((..(((((((((((...(((...-((....)).)))...)))))))))))...(((.....)))..))))))(((((..((((....)))).)))))....... ( -24.90)
>DroYak_CAF1 65771 107 + 1
U----AUGCAUGCAUGAAUGCCAUUAUGGGCUGUCAAAA-AGAAUGCAG----AAUAAAUA--UGCACACUCUCGAAAAGCGUUGAGUGAAUAUAUAUGCUUGCAUACUUUU--ACACCU
(----(((((.(((((...(((......)))........-....((((.----........--))))(((((.((.....))..)))))......))))).)))))).....--...... ( -25.90)
>consensus
UGCAUGUGCAUGCUUAAAUGCAAUUAAAGGGUGUCAAAA_AGAAUGCAGUGAAAACACAUAGUUGCAUACUCUCGAGAAGCAUUGAGUGAAAAUAUAUGGUUGCAUACUUUUCAACACCU
............................((((((......((.(((((((....)).((((......(((((............)))))......))))..))))).)).....)))))) (-12.78 = -14.74 +   1.96)

alignment

secondary structure

dotplot

Window 0

Location	24,239,590 – 24,239,709
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	79.56
Mean single sequence MFE	-26.55
Consensus MFE	-15.91
Energy contribution	-17.15
Covariance contribution	1.24
Combinations/Pair	1.20
Mean z-score	-2.33
Structure conservation index	0.60
SVM decision value	1.39
SVM RNA-class probability	0.949031
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24239590 119 - 27905053
AGGUGUUGAAAAGUAUGCAACCAUAUAUUUUCACUCAAUGCUUCUGGAGAGUAUGCAACUAUGUGUUUUCACUGCAUUCU-UUUCGACACCCUUUAAUUGCAUUUAAGCAUGCACAUGCA
.((((((((((((.(((((....(((((((((.(...........)))))))))).......(((....)))))))).))-))))))))))................((((....)))). ( -34.50)
>DroSec_CAF1 62238 120 - 1
AGGUGUUGAAAAGCAUGCAACCAUAUAUUUUCACUCAAUGCUUCUCGAGAGUAUGCAACUAUGUGUUUUCACUGCAUUCCUAUUUGACACCCUUUUAUUGCAUUUAAGCAUGCACAUGCA
.(((((..((.((.(((((....(((((((((..............))))))))).......(((....))))))))..)).))..)))))................((((....)))). ( -26.94)
>DroSim_CAF1 66740 111 - 1
AGGUGUUGAAAAGUAUGCAACCAUAUAUUUUCACUCAAUCCUUCUCGAGAGUAUGCAACUAUGUGUUUUCACUGCAUUCCUAUUUGACACCCUUUAAUUGCAUU---------GCAUGCA
.(((((..((.((.(((((....(((((((((..............))))))))).......(((....))))))))..)).))..))))).......(((((.---------..))))) ( -25.24)
>DroEre_CAF1 67536 111 - 1
AGGUGUCGAAAAGUAUGCAAACAUAUAUUUUCACUCGAUGCUCUUCGAGAGUAAGCAACUAUGUAUUUUCACAGCAUUCU-UUUUGACUGCACAUAAUUACAUUCAA----GCAU----A
..(((((((((((.((((...............(((((......)))))(((.....))).............)))).))-))))))).))................----....----. ( -23.10)
>DroYak_CAF1 65771 107 - 1
AGGUGU--AAAAGUAUGCAAGCAUAUAUAUUCACUCAACGCUUUUCGAGAGUGUGCA--UAUUUAUU----CUGCAUUCU-UUUUGACAGCCCAUAAUGGCAUUCAUGCAUGCAU----A
......--....(((((((.(((...(((........((((((.....))))))...--....))).----.))).....-...(((..(((......)))..))))))))))..----. ( -22.96)
>consensus
AGGUGUUGAAAAGUAUGCAACCAUAUAUUUUCACUCAAUGCUUCUCGAGAGUAUGCAACUAUGUGUUUUCACUGCAUUCU_UUUUGACACCCUUUAAUUGCAUUCAAGCAUGCACAUGCA
.((((((((((...(((((.....((((.........((((((.....))))))........))))......)))))....))))))))))............................. (-15.91 = -17.15 +   1.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:26:05 2006