Locus 9636

Sequence ID	3R_DroMel_CAF1
Location	25,464,715 – 25,464,807
Length	92
Max. P	0.942986

overview

Window 7

Location	25,464,715 – 25,464,807
Length	92
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.31
Mean single sequence MFE	-30.45
Consensus MFE	-18.23
Energy contribution	-18.90
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-1.48
Structure conservation index	0.60
SVM decision value	0.24
SVM RNA-class probability	0.650940
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25464715 92 + 27905053
------------------UGUCAACUAAAUCU----AC------GCUAAACUAUAUGUAGGUCUGCUCGCAGGAGUUGUGUCGCACGUGCUGAAUGCCGUGCAGCGAGCAGGUCGAGUAG
------------------............((----((------.....((.....)).(..((((((((..((......))(((((.((.....))))))).))))))))..)..)))) ( -33.60)
>DroVir_CAF1 177085 110 + 1
GCGAGCGGGCCUGUUGAAUGGUAACUAAACCU----AG------GCAAAACUAUAUAUAAGUCUGCUCGCAGGAAUUGUGGCGCACGUGCUGAAUUCCGUGCAGCGAGCAAGUUGAGUAG
((((((((((.(((...(((((..(((....)----))------.....)))))..))).)))))))))).((((((.(((((....)))))))))))...((((......))))..... ( -36.40)
>DroGri_CAF1 173975 103 + 1
-------UGCCUCUGGGGUAGCAACAAAAUCU----AU------GCUAAACUAUAUAUAAGUCUGCUCGCAGGAAUUGUGUCGCACGUGCUGAAUGCCGUGCAGCGAGCAAGUUGAGUAG
-------...((((((..(((((.........----.)------))))..)))......((..(((((((..((......))(((((.((.....))))))).)))))))..)))))... ( -33.50)
>DroWil_CAF1 183816 96 + 1
------------------UGUCAACUAAAUCUUUAUAU------GCUAAACUAUAUAUAAGUUUGCUCGCAGGAAUUGUGUCGCACGUGCUGAAUGCCGUGCAGCGAACAUGUGGAAUAG
------------------....................------......((((.((((.((((((((((((...)))))..(((((.((.....)))))))))))))).))))..)))) ( -23.90)
>DroMoj_CAF1 175109 98 + 1
GCGAGCGAGCU------------GCCAAAUCU----AU------GCUAAACUAAAUAUAAGUCUGCUCACAGGAAUUGUGGCGCACGUGCUGAAUGCCGUGCAGCGAGCAGGUCGAGUAG
((...(((.((------------(((......----..------....................((.(((((...)))))))(((((.((.....)))))))...).)))).))).)).. ( -29.30)
>DroPer_CAF1 158184 98 + 1
------------------UGUCAACUAAAUCU----ACGAGUAUGCUAAACUAUAUAUAACUUUGCUCGCAAGAAUUGUGGCGCACGUGCUGAAUGCCGUGCUCCGAGCAGGUCGAGUAG
------------------............((----((..(((((......))))).....((((((((((.....)))((.(((((.((.....))))))).)))))))))....)))) ( -26.00)
>consensus
__________________UGUCAACUAAAUCU____AU______GCUAAACUAUAUAUAAGUCUGCUCGCAGGAAUUGUGGCGCACGUGCUGAAUGCCGUGCAGCGAGCAGGUCGAGUAG
...............................................................(((((((..(........)(((((.((.....))))))).))))))).......... (-18.23 = -18.90 +   0.67)

alignment

secondary structure

dotplot

Window 8

Location	25,464,715 – 25,464,807
Length	92
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.31
Mean single sequence MFE	-27.17
Consensus MFE	-19.07
Energy contribution	-19.52
Covariance contribution	0.45
Combinations/Pair	1.19
Mean z-score	-1.71
Structure conservation index	0.70
SVM decision value	1.33
SVM RNA-class probability	0.942986
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25464715 92 - 27905053
CUACUCGACCUGCUCGCUGCACGGCAUUCAGCACGUGCGACACAACUCCUGCGAGCAGACCUACAUAUAGUUUAGC------GU----AGAUUUAGUUGACA------------------
....(((((((((((((.(((((((.....)).)))))((......))..))))))))..((((.((.....))..------))----)).....)))))..------------------ ( -31.00)
>DroVir_CAF1 177085 110 - 1
CUACUCAACUUGCUCGCUGCACGGAAUUCAGCACGUGCGCCACAAUUCCUGCGAGCAGACUUAUAUAUAGUUUUGC------CU----AGGUUUAGUUACCAUUCAACAGGCCCGCUCGC
...............((.(((((..........)))))))..........(((((((((((.......))))).((------((----.(((......))).......))))..)))))) ( -25.70)
>DroGri_CAF1 173975 103 - 1
CUACUCAACUUGCUCGCUGCACGGCAUUCAGCACGUGCGACACAAUUCCUGCGAGCAGACUUAUAUAUAGUUUAGC------AU----AGAUUUUGUUGCUACCCCAGAGGCA-------
...(((...((((((((.(((((((.....)).)))))((......))..))))))))...........(..((((------(.----.........)))))..)..)))...------- ( -29.80)
>DroWil_CAF1 183816 96 - 1
CUAUUCCACAUGUUCGCUGCACGGCAUUCAGCACGUGCGACACAAUUCCUGCGAGCAAACUUAUAUAUAGUUUAGC------AUAUAAAGAUUUAGUUGACA------------------
....((.((.(((((((.(((((((.....)).)))))((......))..)))))))..(((.(((((.(.....)------)))))))).....)).))..------------------ ( -21.90)
>DroMoj_CAF1 175109 98 - 1
CUACUCGACCUGCUCGCUGCACGGCAUUCAGCACGUGCGCCACAAUUCCUGUGAGCAGACUUAUAUUUAGUUUAGC------AU----AGAUUUGGC------------AGCUCGCUCGC
.....(((.((((..((.(((((((.....)).)))))))..(((...(((((...(((((.......)))))..)------))----))..)))))------------)).)))..... ( -28.70)
>DroPer_CAF1 158184 98 - 1
CUACUCGACCUGCUCGGAGCACGGCAUUCAGCACGUGCGCCACAAUUCUUGCGAGCAAAGUUAUAUAUAGUUUAGCAUACUCGU----AGAUUUAGUUGACA------------------
....(((((..(.((((.(((((((.....)).))))).))........((((((....((((.........))))...)))))----))).)..)))))..------------------ ( -25.90)
>consensus
CUACUCGACCUGCUCGCUGCACGGCAUUCAGCACGUGCGACACAAUUCCUGCGAGCAGACUUAUAUAUAGUUUAGC______AU____AGAUUUAGUUGACA__________________
.........((((((((((((((((.....)).))))))...........)))))))).............................................................. (-19.07 = -19.52 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:38:51 2006