Locus 6374

Sequence ID	2L_DroMel_CAF1
Location	17,846,859 – 17,846,951
Length	92
Max. P	0.610080

overview

Window 0

Location	17,846,859 – 17,846,951
Length	92
Sequences	6
Columns	92
Reading direction	forward
Mean pairwise identity	85.50
Mean single sequence MFE	-21.55
Consensus MFE	-14.80
Energy contribution	-14.74
Covariance contribution	-0.05
Combinations/Pair	1.14
Mean z-score	-2.87
Structure conservation index	0.69
SVM decision value	0.04
SVM RNA-class probability	0.555298
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17846859 92 + 22407834
UUGGAAUUUAUAAAUUUACAAAUCUGGGCAUUAGUGCCGGAAGGCCAACCUCAGAUAGAUAAAAUGUAAAUUCAAUAAGCAAAGUAAGCUUA
...(((((((((..((((...(((((((.....(.(((....))))...)))))))...)))).)))))))))..(((((.......))))) ( -24.30)
>DroSec_CAF1 60790 92 + 1
UUGGAAUUUAUAAAUUUACAAAUCUGGGCAUUAGUGCCGGAAGGCGAACCUCAGAUAGAUAAAAUGUAAAUUCAAUAAGCUAAGUCAGCUUA
...(((((((((..((((...(((((((......((((....))))...)))))))...)))).)))))))))..((((((.....)))))) ( -27.20)
>DroSim_CAF1 58522 92 + 1
UUGGAAUUUAUAAAUUUACAAAUCUGGGCAUUAGUGCCGGAAGGCGAACCUCAGAUAGAUAAAAUGUAAAUUCAAUAAGCGAAGUCAGCUUA
...(((((((((..((((...(((((((......((((....))))...)))))))...)))).)))))))))..(((((.......))))) ( -26.70)
>DroEre_CAF1 56465 80 + 1
-----------AAAUUUACAAAUCUGGCCAUUAGUGCCGGAAGGCCAACCUCAAAUAGAUAAAAUGUAAAUUCAAUAACCGAA-UCAGCUUA
-----------.((((((((..(((((((....).))))))(((....))).............))))))))...........-........ ( -14.70)
>DroYak_CAF1 57705 91 + 1
UUGGAUUUGAUAAAUUUACAAAUCUGGGCAUUAGUGCCGGAAGCCCAACCUCAAAUAGAUAAAAUGUAAAUUCAAUAAGCGAA-UCAGCUUA
(((((((((....((((....(((((((((....))))((....)).........))))).)))).)))))))))(((((...-...))))) ( -19.10)
>DroAna_CAF1 61618 89 + 1
UUCGGUUCCAGUAAUUUGCAAAUCUGGGAAUUAAUGCCGG---GCCAGCCUCAAACGGAUAAAAUGCAAAUUCAAUAAGCAACGUCAGCUUA
..........(.((((((((.(((((((........))((---(....)))....)))))....)))))))))..(((((.......))))) ( -17.30)
>consensus
UUGGAAUUUAUAAAUUUACAAAUCUGGGCAUUAGUGCCGGAAGGCCAACCUCAAAUAGAUAAAAUGUAAAUUCAAUAAGCGAAGUCAGCUUA
............((((((((.(((((.........(((....)))..........)))))....))))))))...(((((.......))))) (-14.80 = -14.74 +  -0.05)

alignment

secondary structure

dotplot

Window 1

Location	17,846,859 – 17,846,951
Length	92
Sequences	6
Columns	92
Reading direction	reverse
Mean pairwise identity	85.50
Mean single sequence MFE	-20.87
Consensus MFE	-15.33
Energy contribution	-16.00
Covariance contribution	0.67
Combinations/Pair	1.12
Mean z-score	-2.50
Structure conservation index	0.73
SVM decision value	0.16
SVM RNA-class probability	0.610080
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17846859 92 - 22407834
UAAGCUUACUUUGCUUAUUGAAUUUACAUUUUAUCUAUCUGAGGUUGGCCUUCCGGCACUAAUGCCCAGAUUUGUAAAUUUAUAAAUUCCAA
(((((.......)))))..(((((((...(((((..(((((.(((.((((....))).)....))))))))..)))))....)))))))... ( -24.10)
>DroSec_CAF1 60790 92 - 1
UAAGCUGACUUAGCUUAUUGAAUUUACAUUUUAUCUAUCUGAGGUUCGCCUUCCGGCACUAAUGCCCAGAUUUGUAAAUUUAUAAAUUCCAA
(((((((...)))))))..(((((((...(((((..(((((.(((..(((....)))......))))))))..)))))....)))))))... ( -23.70)
>DroSim_CAF1 58522 92 - 1
UAAGCUGACUUCGCUUAUUGAAUUUACAUUUUAUCUAUCUGAGGUUCGCCUUCCGGCACUAAUGCCCAGAUUUGUAAAUUUAUAAAUUCCAA
(((((.......)))))..(((((((...(((((..(((((.(((..(((....)))......))))))))..)))))....)))))))... ( -22.30)
>DroEre_CAF1 56465 80 - 1
UAAGCUGA-UUCGGUUAUUGAAUUUACAUUUUAUCUAUUUGAGGUUGGCCUUCCGGCACUAAUGGCCAGAUUUGUAAAUUU-----------
..(((((.-..)))))...(((((((((....((((....((((....))))..(((.(....)))))))).)))))))))----------- ( -17.70)
>DroYak_CAF1 57705 91 - 1
UAAGCUGA-UUCGCUUAUUGAAUUUACAUUUUAUCUAUUUGAGGUUGGGCUUCCGGCACUAAUGCCCAGAUUUGUAAAUUUAUCAAAUCCAA
(((((...-...))))).((((((((((....((((....((((.....)))).((((....)))).)))).)))))))))).......... ( -20.90)
>DroAna_CAF1 61618 89 - 1
UAAGCUGACGUUGCUUAUUGAAUUUGCAUUUUAUCCGUUUGAGGCUGGC---CCGGCAUUAAUUCCCAGAUUUGCAAAUUACUGGAACCGAA
(((((.......)))))...((((((((..((......((((.((((..---.)))).))))......))..))))))))............ ( -16.50)
>consensus
UAAGCUGACUUCGCUUAUUGAAUUUACAUUUUAUCUAUCUGAGGUUGGCCUUCCGGCACUAAUGCCCAGAUUUGUAAAUUUAUAAAUUCCAA
(((((.......))))).((((((((((........(((((.(((..(((....)))......)))))))).)))))))))).......... (-15.33 = -16.00 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:31 2006