Locus 7431

Sequence ID	3L_DroMel_CAF1
Location	19,982,126 – 19,982,257
Length	131
Max. P	0.751676

overview

Window 3

Location	19,982,126 – 19,982,217
Length	91
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	92.72
Mean single sequence MFE	-19.06
Consensus MFE	-14.34
Energy contribution	-14.98
Covariance contribution	0.64
Combinations/Pair	1.04
Mean z-score	-1.99
Structure conservation index	0.75
SVM decision value	0.41
SVM RNA-class probability	0.727034
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19982126 91 + 23771897
GCACUCCCCUGUCACUUUUAUCUGCGUGCGUGAACAUAAAUAUCGCAAACGCUUUUUGCAUUUAUUU------GUGCAUUCCACAUGCAUAUACAUG
..................(((.((((((.(.(((((((((((..(((((.....)))))...)))))------)))..)))).)))))).))).... ( -19.50)
>DroSec_CAF1 72403 91 + 1
GCACUCCCCUGUCACUUUUAUCUGCGUGCGUGCACAUAAAUAUCGCAAACGCCUUUUGCAUUUAUUU------GUGCAUUCCUCAUGCAAAUACAUG
..................(((.((((((.(((((((..((((..(((((.....)))))...)))))------))))))....)))))).))).... ( -19.70)
>DroSim_CAF1 31043 91 + 1
GCACUCCCCUGUCACUUUUAUCUGCGUGCGUGCACAUAAAUAUCGCAAACGCCUUUUGCAUUUAUUU------GUGCAUUCCUCAUGCAAAUACAUG
..................(((.((((((.(((((((..((((..(((((.....)))))...)))))------))))))....)))))).))).... ( -19.70)
>DroEre_CAF1 22978 97 + 1
GCACUUCCCGGUCACUUUUAUCUCCGUGCGUGCACAUAAAUAUCGCAAACGCCUUUUGCAUUUGUUUUGCAUUUCGCAUUCCUCAUGCAAAUACAUG
((((..(.(((............))).).))))...........(((((.....)))))...((((((((((............))))))).))).. ( -16.70)
>DroYak_CAF1 23873 91 + 1
GCACUCCCCUGUCAAUUUUAUCUGCGUGCGUGCACAUAAAUAUCGCAAACGCCUUUUGCAUUUAUUU------GUGCAUUCCUCAUGCAAAUACAUG
..................(((.((((((.(((((((..((((..(((((.....)))))...)))))------))))))....)))))).))).... ( -19.70)
>consensus
GCACUCCCCUGUCACUUUUAUCUGCGUGCGUGCACAUAAAUAUCGCAAACGCCUUUUGCAUUUAUUU______GUGCAUUCCUCAUGCAAAUACAUG
..................(((.((((((.((((((..(((((..(((((.....)))))...)))))......))))))....)))))).))).... (-14.34 = -14.98 +   0.64)

alignment

secondary structure

dotplot

Window 4

Location	19,982,143 – 19,982,257
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.64
Mean single sequence MFE	-23.77
Consensus MFE	-18.24
Energy contribution	-18.88
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-1.95
Structure conservation index	0.77
SVM decision value	0.48
SVM RNA-class probability	0.751676
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19982143 114 + 23771897
UUAUCUGCGUGCGUGAACAUAAAUAUCGCAAACGCUUUUUGCAUUUAUUU------GUGCAUUCCACAUGCAUAUACAUGACAGCAAAAUAAAAUAUUAGUUGACCACCUGUCGCUCUUC
.(((.((((((.(.(((((((((((..(((((.....)))))...)))))------)))..)))).)))))).)))...(((((........(((....)))......)))))....... ( -23.74)
>DroSec_CAF1 72420 114 + 1
UUAUCUGCGUGCGUGCACAUAAAUAUCGCAAACGCCUUUUGCAUUUAUUU------GUGCAUUCCUCAUGCAAAUACAUGACAGCAAAAUAAAAUAUUAGUUGCUCACCUGUCGCUCUUC
.(((.((((((.(((((((..((((..(((((.....)))))...)))))------))))))....)))))).)))...(((((........(((....)))......)))))....... ( -23.94)
>DroSim_CAF1 31060 114 + 1
UUAUCUGCGUGCGUGCACAUAAAUAUCGCAAACGCCUUUUGCAUUUAUUU------GUGCAUUCCUCAUGCAAAUACAUGACAGCAAAAUAAAAUAUUAGUUGCUCACCUGUCGCUCUUC
.(((.((((((.(((((((..((((..(((((.....)))))...)))))------))))))....)))))).)))...(((((........(((....)))......)))))....... ( -23.94)
>DroEre_CAF1 22995 120 + 1
UUAUCUCCGUGCGUGCACAUAAAUAUCGCAAACGCCUUUUGCAUUUGUUUUGCAUUUCGCAUUCCUCAUGCAAAUACAUGACAGCAAAAUAAAAUAUUAGUUGCCCACCUGUCGCUCUUC
........(((.(.(((.((.(((((.(((((.....))))).((((((((((.....(.....)(((((......)))))..))))))))))))))).)))))))))............ ( -20.70)
>DroYak_CAF1 23890 114 + 1
UUAUCUGCGUGCGUGCACAUAAAUAUCGCAAACGCCUUUUGCAUUUAUUU------GUGCAUUCCUCAUGCAAAUACAUGACAGCAAAAUAAACUAUUAGUUGCCCACCUGUCGCCCUUC
.(((.((((((.(((((((..((((..(((((.....)))))...)))))------))))))....)))))).)))...(((((.......(((.....)))......)))))....... ( -26.52)
>consensus
UUAUCUGCGUGCGUGCACAUAAAUAUCGCAAACGCCUUUUGCAUUUAUUU______GUGCAUUCCUCAUGCAAAUACAUGACAGCAAAAUAAAAUAUUAGUUGCCCACCUGUCGCUCUUC
.(((.((((((.((((((..(((((..(((((.....)))))...)))))......))))))....)))))).)))...(((((.....(((........))).....)))))....... (-18.24 = -18.88 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:54 2006