Locus 2309

Sequence ID	2L_DroMel_CAF1
Location	6,265,999 – 6,266,167
Length	168
Max. P	0.999963

overview

Window 0

Location	6,265,999 – 6,266,102
Length	103
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	92.66
Mean single sequence MFE	-18.74
Consensus MFE	-17.34
Energy contribution	-17.78
Covariance contribution	0.44
Combinations/Pair	1.05
Mean z-score	-1.09
Structure conservation index	0.93
SVM decision value	0.01
SVM RNA-class probability	0.539348
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6265999 103 + 22407834
------UAAAAAGAUUUACAUCACUUUAAACUCAUCAACUCAUCAUGAUGGCCAAGCAUUACGCAGCCCCUAUUAAAAAUGAUUUGGGCCAAAGCGGCGUCAUUAAAUG
------......(((.................(((((........)))))(((..((.....)).((((..((((....))))..))))......))))))........ ( -19.70)
>DroSec_CAF1 102055 100 + 1
------CAAAAAGAUUUACAUCACUUUAAACUCAUCAGCUC---AUGAUGGCCAAGCAUUACGCAGCCCCUAUUAAAAAUGAUUUGGGCCAAAGCGGCGUCAUUAAAUG
------......(((.................(((((....---.)))))(((..((.....)).((((..((((....))))..))))......))))))........ ( -20.50)
>DroSim_CAF1 116822 106 + 1
AUUAUAUAUAAAGAUUUACAUCACUUUAAACUCAUCAGCUC---AUGAUGGCCAAGCAUUACGCAGCCCCUAUUAAAAAUGAUUUGGGCCAAAGCGGCGUCAUUAAAUG
............(((.................(((((....---.)))))(((..((.....)).((((..((((....))))..))))......))))))........ ( -20.50)
>DroEre_CAF1 101333 100 + 1
------CAACAAGACUUACAUCACUUUAAACCCAUCAGCUC---AUGAUGGCCAAGCAUUACGCAGCCCCUAUUAAAAAUGAUUUGGGCCAAAGCAGCGUCAUUAAAUG
------......(((................((((((....---.))))))...........((.((((..((((....))))..))))....))...)))........ ( -19.60)
>DroYak_CAF1 114771 100 + 1
------GAACAAGAUUUACAUCACUUUAAACUCAUCAGCUC---AUGAUAGCCAAGCAUUACGCAGCCCCUAUUAAAAAUGAUUUGGGCCAAAGCAGCGUCAUUAAAUG
------......(((..................((((....---.)))).((...((.....)).((((..((((....))))..))))....))...)))........ ( -13.40)
>consensus
______CAAAAAGAUUUACAUCACUUUAAACUCAUCAGCUC___AUGAUGGCCAAGCAUUACGCAGCCCCUAUUAAAAAUGAUUUGGGCCAAAGCGGCGUCAUUAAAUG
............(((.................(((((........)))))(((..((.....)).((((..((((....))))..))))......))))))........ (-17.34 = -17.78 +   0.44)

alignment

secondary structure

dotplot

Window 1

Location	6,266,022 – 6,266,142
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.79
Mean single sequence MFE	-35.78
Consensus MFE	-34.20
Energy contribution	-34.00
Covariance contribution	-0.20
Combinations/Pair	1.08
Mean z-score	-3.19
Structure conservation index	0.96
SVM decision value	4.93
SVM RNA-class probability	0.999963
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6266022 120 + 22407834
ACUCAUCAACUCAUCAUGAUGGCCAAGCAUUACGCAGCCCCUAUUAAAAAUGAUUUGGGCCAAAGCGGCGUCAUUAAAUGGACGUUGUGAGAUAAUUUGGGCCAUCAAAGCCUAAAACCC
................((((((((..((.....)).((((..((((....))))..))))....((((((((........))))))))...........))))))))............. ( -34.30)
>DroSec_CAF1 102078 117 + 1
ACUCAUCAGCUC---AUGAUGGCCAAGCAUUACGCAGCCCCUAUUAAAAAUGAUUUGGGCCAAAGCGGCGUCAUUAAAUGGACGUUGUGAGAUAAUUUGGGCCAUCAAAGCCUAAAACCC
........(((.---.((((((((..((.....)).((((..((((....))))..))))....((((((((........))))))))...........)))))))).)))......... ( -36.60)
>DroSim_CAF1 116851 117 + 1
ACUCAUCAGCUC---AUGAUGGCCAAGCAUUACGCAGCCCCUAUUAAAAAUGAUUUGGGCCAAAGCGGCGUCAUUAAAUGGACGUUGUGAGAUAAUUUGGGCCAUCAAAGCCUAAAACCC
........(((.---.((((((((..((.....)).((((..((((....))))..))))....((((((((........))))))))...........)))))))).)))......... ( -36.60)
>DroEre_CAF1 101356 116 + 1
ACCCAUCAGCUC---AUGAUGGCCAAGCAUUACGCAGCCCCUAUUAAAAAUGAUUUGGGCCAAAGCAGCGUCAUUAAAUGGACGUUGUGAGAUAAUUUGGGCCAUCAAAGCCUAAAAC-C
........(((.---.((((((((..((.....)).((((..((((....))))..))))....((((((((........))))))))...........)))))))).))).......-. ( -37.40)
>DroYak_CAF1 114794 117 + 1
ACUCAUCAGCUC---AUGAUAGCCAAGCAUUACGCAGCCCCUAUUAAAAAUGAUUUGGGCCAAAGCAGCGUCAUUAAAUGGACGUUGCGAGAUAAUUUGGGCCAUCAAAGCCUAAAACCC
.(((((((....---.))))......((.....)).((((..((((....))))..))))....((((((((........)))))))))))....(((((((.......))))))).... ( -34.00)
>consensus
ACUCAUCAGCUC___AUGAUGGCCAAGCAUUACGCAGCCCCUAUUAAAAAUGAUUUGGGCCAAAGCGGCGUCAUUAAAUGGACGUUGUGAGAUAAUUUGGGCCAUCAAAGCCUAAAACCC
................((((((((..((.....)).((((..((((....))))..))))....((((((((........))))))))...........))))))))............. (-34.20 = -34.00 +  -0.20)

alignment

secondary structure

dotplot

Window 2

Location	6,266,062 – 6,266,167
Length	105
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	93.30
Mean single sequence MFE	-31.34
Consensus MFE	-30.40
Energy contribution	-29.84
Covariance contribution	-0.56
Combinations/Pair	1.10
Mean z-score	-1.85
Structure conservation index	0.97
SVM decision value	3.17
SVM RNA-class probability	0.998638
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6266062 105 + 22407834
CUAUUAAAAAUGAUUUGGGCCAAAGCGGCGUCAUUAAAUGGACGUUGUGAGAUAAUUUGGGCCAUCAAAGCCUAAAACCCAAUGGUGUCCAAGUUGGAGGGUGGU----------
(((((.....((((((((((....((((((((........)))))))).......(((((((.......)))))))(((....)))))))))))))...))))).---------- ( -30.90)
>DroSec_CAF1 102115 105 + 1
CUAUUAAAAAUGAUUUGGGCCAAAGCGGCGUCAUUAAAUGGACGUUGUGAGAUAAUUUGGGCCAUCAAAGCCUAAAACCCAGUGGUGUCCAAGUGAGGGGGUGGU----------
(((((.....(.((((((((....((((((((........)))))))).......(((((((.......)))))))(((....))))))))))).)...))))).---------- ( -30.30)
>DroSim_CAF1 116888 105 + 1
CUAUUAAAAAUGAUUUGGGCCAAAGCGGCGUCAUUAAAUGGACGUUGUGAGAUAAUUUGGGCCAUCAAAGCCUAAAACCCAGUGGUGUCCAAGUGAGGGGGUGGU----------
(((((.....(.((((((((....((((((((........)))))))).......(((((((.......)))))))(((....))))))))))).)...))))).---------- ( -30.30)
>DroEre_CAF1 101393 114 + 1
CUAUUAAAAAUGAUUUGGGCCAAAGCAGCGUCAUUAAAUGGACGUUGUGAGAUAAUUUGGGCCAUCAAAGCCUAAAAC-CAGUGGUGUCCAAGUAAGGGGGUGGUGAUUCUCGGC
............(((((((((...((((((((........)))))))).......(((((((.......)))))))..-.....).))))))))..((((((....))))))... ( -31.80)
>DroYak_CAF1 114831 105 + 1
CUAUUAAAAAUGAUUUGGGCCAAAGCAGCGUCAUUAAAUGGACGUUGCGAGAUAAUUUGGGCCAUCAAAGCCUAAAACCCAGUGGUGUCCAAGUGAGGGGGUGGU----------
(((((.....(.((((((((....((((((((........)))))))).......(((((((.......)))))))(((....))))))))))).)...))))).---------- ( -33.40)
>consensus
CUAUUAAAAAUGAUUUGGGCCAAAGCGGCGUCAUUAAAUGGACGUUGUGAGAUAAUUUGGGCCAUCAAAGCCUAAAACCCAGUGGUGUCCAAGUGAGGGGGUGGU__________
(((((.....(.(((((((((...((((((((........)))))))).......(((((((.......)))))))........).)))))))).)...)))))........... (-30.40 = -29.84 +  -0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:44 2006