Locus 9320

Sequence ID	3R_DroMel_CAF1
Location	24,784,065 – 24,784,185
Length	120
Max. P	0.875099

overview

Window 7

Location	24,784,065 – 24,784,185
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	98.89
Mean single sequence MFE	-25.03
Consensus MFE	-22.33
Energy contribution	-22.33
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.84
Structure conservation index	0.89
SVM decision value	0.04
SVM RNA-class probability	0.554331
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24784065 120 + 27905053
AAGCAAACAAUGUCGGUGGCCAAAAGCAAACAUAAUUGAUAUCGUAAUCAAUUCAAAAAUCUGGGAAAACUAAAAACAGCAAAUGCUGUGAAAACAGCGCUGUGGACACGGGACAAGUGC
..(((..(..(((((((..((...((.......(((((((......))))))).......)).))...)))....(((((....(((((....)))))))))).))))..)......))) ( -27.94)
>DroEre_CAF1 24268 120 + 1
AAGCAAACAAUGUCGGUGGCCAAAAGCAAACAUAAUUGAUAUCGUAAUCAAUUCAAAAAUCUGGGAAAACUAAAAACAGCAAAUGCUAUGAAAACAGCGCUGUGGACACGGGACAAGUGC
..(((..(..(((((((..((...((.......(((((((......))))))).......)).))...)))....(((((....(((.(....).)))))))).))))..)......))) ( -21.94)
>DroYak_CAF1 16108 120 + 1
AAGCAAACAAUGUCGGUGGCCAAAAGCAAACAUAAUUGAUAUCGUAAUCAAUUCAAAAAUCUGGGGAAACUAAAAACAGCAAAUGCUAUGAAAACAGCGCUGUGGACACGGGACAAGUGC
..(((.....((((.(((.(((..(((......(((((((......))))))).......(((((....))......(((....))).......))).))).))).)))..))))..))) ( -25.20)
>consensus
AAGCAAACAAUGUCGGUGGCCAAAAGCAAACAUAAUUGAUAUCGUAAUCAAUUCAAAAAUCUGGGAAAACUAAAAACAGCAAAUGCUAUGAAAACAGCGCUGUGGACACGGGACAAGUGC
..(((.....((((.(((.(((..(((......(((((((......))))))).......(((((....))......(((....))).......))).))).))).)))..))))..))) (-22.33 = -22.33 +  -0.00)

alignment

secondary structure

dotplot

Window 8

Location	24,784,065 – 24,784,185
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	98.89
Mean single sequence MFE	-26.63
Consensus MFE	-26.85
Energy contribution	-26.63
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-1.85
Structure conservation index	1.01
SVM decision value	0.89
SVM RNA-class probability	0.875099
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24784065 120 - 27905053
GCACUUGUCCCGUGUCCACAGCGCUGUUUUCACAGCAUUUGCUGUUUUUAGUUUUCCCAGAUUUUUGAAUUGAUUACGAUAUCAAUUAUGUUUGCUUUUGGCCACCGACAUUGUUUGCUU
(((..((((..(((.((((((((((((....)))))....)))))............(((((.....(((((((......)))))))..))))).....)).))).)))).....))).. ( -27.90)
>DroEre_CAF1 24268 120 - 1
GCACUUGUCCCGUGUCCACAGCGCUGUUUUCAUAGCAUUUGCUGUUUUUAGUUUUCCCAGAUUUUUGAAUUGAUUACGAUAUCAAUUAUGUUUGCUUUUGGCCACCGACAUUGUUUGCUU
(((..((((..(((.((((((((((((....)))))....)))))............(((((.....(((((((......)))))))..))))).....)).))).)))).....))).. ( -26.00)
>DroYak_CAF1 16108 120 - 1
GCACUUGUCCCGUGUCCACAGCGCUGUUUUCAUAGCAUUUGCUGUUUUUAGUUUCCCCAGAUUUUUGAAUUGAUUACGAUAUCAAUUAUGUUUGCUUUUGGCCACCGACAUUGUUUGCUU
(((..((((..(((.((((((((((((....)))))....)))))............(((((.....(((((((......)))))))..))))).....)).))).)))).....))).. ( -26.00)
>consensus
GCACUUGUCCCGUGUCCACAGCGCUGUUUUCAUAGCAUUUGCUGUUUUUAGUUUUCCCAGAUUUUUGAAUUGAUUACGAUAUCAAUUAUGUUUGCUUUUGGCCACCGACAUUGUUUGCUU
(((..((((..(((.((((((((((((....)))))....)))))............(((((.....(((((((......)))))))..))))).....)).))).)))).....))).. (-26.85 = -26.63 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:31:37 2006