Locus 2801

Sequence ID	X_DroMel_CAF1
Location	7,485,961 – 7,486,113
Length	152
Max. P	0.829715

overview

Window 9

Location	7,485,961 – 7,486,073
Length	112
Sequences	4
Columns	113
Reading direction	forward
Mean pairwise identity	97.63
Mean single sequence MFE	-21.42
Consensus MFE	-19.72
Energy contribution	-20.22
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-2.09
Structure conservation index	0.92
SVM decision value	0.71
SVM RNA-class probability	0.829715
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7485961 112 + 22224390
AUGCAGGGCACGCGUGUAUAUAAUCCUUUUUUACAGGACCCC-AACCCGAAUAUCACGCCCCAUCCAUUCCUCCCCCCUGACUUUUCUCAUCUUCGUCAGCAGCUUCGCAUAU
((((..(((..(((((.((((..((((.......))))...(-.....).)))))))))..................(((((.............)))))..)))..)))).. ( -22.92)
>DroSec_CAF1 19011 112 + 1
AUGCAGGGCACGCGUGUAUAUAAUCCUUUUUUACAGGACCCC-AACCCGAAUAUCACGCCCCAUCCAUUCCUCCCCCCAGACUUUUCUCAUCUUCGUCAGCAGCUUCGCAUAU
((((..(((..(((((.((((..((((.......))))...(-.....).)))))))))....................(((.............)))....)))..)))).. ( -19.92)
>DroSim_CAF1 20983 112 + 1
AUGCAGGGCACGCGUGUAUAUAAUCCUUUUUUACAGGACCCC-AACCCGAAUAUCACGCCCCAUCCAUUCCUCCCCCCAGACUUUUCUCAUCUUCGUCAGCAGCUUCGCAUAU
((((..(((..(((((.((((..((((.......))))...(-.....).)))))))))....................(((.............)))....)))..)))).. ( -19.92)
>DroEre_CAF1 20061 113 + 1
AUGCAGGGCACGCGUGUAUAUAAUCCUUUUUUACAGGACCCCCAACCCGAAUAUCACGCCCCAUCCGUUCCUCUCCCCUGACUUUUCCCAUCUUCGUCAGCAGCUUCGCAUAU
((((..(((..(((((.((((..((((.......))))....(.....).)))))))))..................(((((.............)))))..)))..)))).. ( -22.92)
>consensus
AUGCAGGGCACGCGUGUAUAUAAUCCUUUUUUACAGGACCCC_AACCCGAAUAUCACGCCCCAUCCAUUCCUCCCCCCAGACUUUUCUCAUCUUCGUCAGCAGCUUCGCAUAU
((((..(((..(((((.((((..((((.......)))).(........).)))))))))..................(((((.............)))))..)))..)))).. (-19.72 = -20.22 +   0.50)

alignment

secondary structure

dotplot

Window 0

Location	7,486,001 – 7,486,113
Length	112
Sequences	4
Columns	113
Reading direction	forward
Mean pairwise identity	97.19
Mean single sequence MFE	-17.57
Consensus MFE	-16.42
Energy contribution	-16.42
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.67
Structure conservation index	0.93
SVM decision value	0.23
SVM RNA-class probability	0.644647
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7486001 112 + 22224390
CC-AACCCGAAUAUCACGCCCCAUCCAUUCCUCCCCCCUGACUUUUCUCAUCUUCGUCAGCAGCUUCGCAUAUCAAAGCUAAUUUAUAUUUUGUAUAGCAUACUUUUGGGCGU
..-............((((((................(((((.............)))))..(((..(((.....................)))..)))........)))))) ( -18.62)
>DroSec_CAF1 19051 112 + 1
CC-AACCCGAAUAUCACGCCCCAUCCAUUCCUCCCCCCAGACUUUUCUCAUCUUCGUCAGCAGCUUCGCAUAUCAAAGCUAAUUUAUAUUUUGUAUAGCAUACAUUUGGGCGU
..-............((((((..................(((.............))).(((((((.........)))))....(((((...)))))))........)))))) ( -16.52)
>DroSim_CAF1 21023 112 + 1
CC-AACCCGAAUAUCACGCCCCAUCCAUUCCUCCCCCCAGACUUUUCUCAUCUUCGUCAGCAGCUUCGCAUAUCAAAGCUAAUUUAUAUUUUGUAUAGCAUACAUUUGGGCGU
..-............((((((..................(((.............))).(((((((.........)))))....(((((...)))))))........)))))) ( -16.52)
>DroEre_CAF1 20101 113 + 1
CCCAACCCGAAUAUCACGCCCCAUCCGUUCCUCUCCCCUGACUUUUCCCAUCUUCGUCAGCAGCUUCGCAUAUCAAAGCUAAUUUAUAUUUUGUAUAGCAUACAUUUGGGCGU
...............((((((................(((((.............)))))..(((..(((.....................)))..)))........)))))) ( -18.62)
>consensus
CC_AACCCGAAUAUCACGCCCCAUCCAUUCCUCCCCCCAGACUUUUCUCAUCUUCGUCAGCAGCUUCGCAUAUCAAAGCUAAUUUAUAUUUUGUAUAGCAUACAUUUGGGCGU
...............((((((..................(((.............))).(((((((.........)))))....(((((...)))))))........)))))) (-16.42 = -16.42 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:45 2006