Locus 1749

Sequence ID	2L_DroMel_CAF1
Location	4,784,077 – 4,784,182
Length	105
Max. P	0.999385

overview

Window 8

Location	4,784,077 – 4,784,182
Length	105
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	94.61
Mean single sequence MFE	-44.44
Consensus MFE	-37.88
Energy contribution	-37.48
Covariance contribution	-0.40
Combinations/Pair	1.06
Mean z-score	-3.11
Structure conservation index	0.85
SVM decision value	3.56
SVM RNA-class probability	0.999385
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4784077 105 + 22407834
CUUGGUCCUUGGUC-------CUGGCCAUUCUGGCCAUCCUGGCCAUUCGUCGGCCAUUUGGCCAUGCUGUGAGUGCAAAUGACAGGCGGGCCAAAAGGAUUAGAGUGAAAU
.(((((((((((((-------(..(((....(((((.....)))))...(((((((....)))).(((.......)))...))).)))))))))..))))))))........ ( -44.40)
>DroSec_CAF1 232268 105 + 1
CUUGGUCCUUGGUC-------CUGGCCAUUCUGGCCAUCCUGGCCAUUCGUCGGCCAUUUGGCCAUGCUGUGAGUGCAAAUGACAGGCGGGCCAAAAGGAUUAGAGUGAAAU
.(((((((((((((-------(..(((....(((((.....)))))...(((((((....)))).(((.......)))...))).)))))))))..))))))))........ ( -44.40)
>DroSim_CAF1 209407 105 + 1
CUUGGUCCUUGGUC-------CUGGCCAUUCUGGCCAUCCUGGCCAUUCGUCGGCCAUUUGGCCAUGCUGUGAGUGCAAAUGACAGGCGGGCCAAAAGGAUUAGAGUGAAAU
.(((((((((((((-------(..(((....(((((.....)))))...(((((((....)))).(((.......)))...))).)))))))))..))))))))........ ( -44.40)
>DroEre_CAF1 221301 104 + 1
UUUGGUCCUUGGUC-------CUGGCUAUCCUGGCCAUCCUAGCCAUUCGUCGGCCAUUUGGCCAUGCUGUGAGUGCAAAUGACAGGCGGGCCAA-AGGAUUAGAGUGAAAU
((((((((((((((-------((((((.....))))).....(((....(((((((....)))).(((.......)))...))).)))))))).)-)))))))))....... ( -43.00)
>DroYak_CAF1 220097 111 + 1
CUUGGUCCUUGGUCCUUAGACCUGGCUAUCCUGGCCAUCCUGGCCAUUCGUCGGCCAUUUGGCCAUGCUGUGAGUGCGAAUGACAGGCGGGCCAA-AGGAUUAGAGUGAAAU
.(((((((((((((....))))(((((..(((((((.....)))(((((((.((((....))))..((.....))))))))).))))..))))))-))))))))........ ( -46.00)
>consensus
CUUGGUCCUUGGUC_______CUGGCCAUUCUGGCCAUCCUGGCCAUUCGUCGGCCAUUUGGCCAUGCUGUGAGUGCAAAUGACAGGCGGGCCAAAAGGAUUAGAGUGAAAU
.(((((((((((((........(((((.....))))).....(((....(((((((....)))).(((.......)))...))).))).)))))..))))))))........ (-37.88 = -37.48 +  -0.40)

alignment

secondary structure

dotplot

Window 9

Location	4,784,077 – 4,784,182
Length	105
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	94.61
Mean single sequence MFE	-38.58
Consensus MFE	-33.32
Energy contribution	-33.56
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-2.73
Structure conservation index	0.86
SVM decision value	3.42
SVM RNA-class probability	0.999186
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4784077 105 - 22407834
AUUUCACUCUAAUCCUUUUGGCCCGCCUGUCAUUUGCACUCACAGCAUGGCCAAAUGGCCGACGAAUGGCCAGGAUGGCCAGAAUGGCCAG-------GACCAAGGACCAAG
............((((..(((.((.((((((((((((.......)).(((((....)))))..)))))).)))).(((((.....))))))-------).)))))))..... ( -38.00)
>DroSec_CAF1 232268 105 - 1
AUUUCACUCUAAUCCUUUUGGCCCGCCUGUCAUUUGCACUCACAGCAUGGCCAAAUGGCCGACGAAUGGCCAGGAUGGCCAGAAUGGCCAG-------GACCAAGGACCAAG
............((((..(((.((.((((((((((((.......)).(((((....)))))..)))))).)))).(((((.....))))))-------).)))))))..... ( -38.00)
>DroSim_CAF1 209407 105 - 1
AUUUCACUCUAAUCCUUUUGGCCCGCCUGUCAUUUGCACUCACAGCAUGGCCAAAUGGCCGACGAAUGGCCAGGAUGGCCAGAAUGGCCAG-------GACCAAGGACCAAG
............((((..(((.((.((((((((((((.......)).(((((....)))))..)))))).)))).(((((.....))))))-------).)))))))..... ( -38.00)
>DroEre_CAF1 221301 104 - 1
AUUUCACUCUAAUCCU-UUGGCCCGCCUGUCAUUUGCACUCACAGCAUGGCCAAAUGGCCGACGAAUGGCUAGGAUGGCCAGGAUAGCCAG-------GACCAAGGACCAAA
............((((-(.((((.(.(((((...(((.......)))((((((..((((((.....))))))...)))))).))))).).)-------).)))))))..... ( -35.70)
>DroYak_CAF1 220097 111 - 1
AUUUCACUCUAAUCCU-UUGGCCCGCCUGUCAUUCGCACUCACAGCAUGGCCAAAUGGCCGACGAAUGGCCAGGAUGGCCAGGAUAGCCAGGUCUAAGGACCAAGGACCAAG
............((((-((((((..((((((((((((.......)).(((((....)))))..)))))).))))..)))))((....)).((((....)))))))))..... ( -43.20)
>consensus
AUUUCACUCUAAUCCUUUUGGCCCGCCUGUCAUUUGCACUCACAGCAUGGCCAAAUGGCCGACGAAUGGCCAGGAUGGCCAGAAUGGCCAG_______GACCAAGGACCAAG
.................((((.((.((((((((((((.......)).(((((....)))))..))))))).))).(((((.....)))))..............)).)))). (-33.32 = -33.56 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:11 2006