Locus 458

Sequence ID	3R_DroMel_CAF1
Location	1,734,932 – 1,735,064
Length	132
Max. P	0.956770

overview

Window 1

Location	1,734,932 – 1,735,029
Length	97
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	91.21
Mean single sequence MFE	-38.12
Consensus MFE	-32.01
Energy contribution	-32.65
Covariance contribution	0.64
Combinations/Pair	1.11
Mean z-score	-2.69
Structure conservation index	0.84
SVM decision value	1.47
SVM RNA-class probability	0.956770
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1734932 97 - 27905053
-CUGAGGAUGAGGCUGCAGCAAUGCGACUUUACCUUGUGCCACUUAGGAACUACGGCAGCGGCAACAACAAUGCCACUGGGCUGU------UGUUUUUAGUGGC
-..((((.(((((.((((....)))).)))))))))..((((((.((((((.(((((((.((((.......)))).))..)))))------.)))))))))))) ( -39.80)
>DroSec_CAF1 44072 97 - 1
-CUGAGGAUGAGGCUGCAGCAAUGCGACUUUACCUUGUGCCACUUAGGCACUACGGCAGCGGCAACAACAAUGCCACUGGGCUGU------UGUUUUUAGUGGC
-..((((.(((((.((((....)))).)))))))))..((((((.(((((..(((((((.((((.......)))).))..)))))------)))))..)))))) ( -37.10)
>DroSim_CAF1 45237 97 - 1
-CUGAGGAUGAGGCUGCAGCAAUGCGACUUUACCUUGUGCCACUUAGGCACUACGGCAGCGGCAACAACAAUGCCACUGGGCUGU------UGUUUUUAGUGGC
-..((((.(((((.((((....)))).)))))))))..((((((.(((((..(((((((.((((.......)))).))..)))))------)))))..)))))) ( -37.10)
>DroEre_CAF1 43034 97 - 1
-GUGAGGAUGAGGCUGCAGCAAUGCGACUUUACCUUGUGCCACUUAGGCACUACGGCAGCGGCGGCAACAAUGCCACUGGGCUGU------UGUUUUUAGUGGC
-(..(((.(((((.((((....)))).))))))))..)((((((.(((((..(((((..(((.((((....)))).))).)))))------)))))..)))))) ( -42.30)
>DroYak_CAF1 44139 98 - 1
GAUGAGGAUGAGGCUGCAGCAAAGCGACUUUACCUUGUGCCACUUAGGCUCUACGGCAGGGGCAACAACAAUGCCACUGGGCUGU------UGUUUUUAGUGGC
.(..(((.(((((.(((......))).))))))))..)((((((.((((...(((((.((((((.......)))).))..)))))------.))))..)))))) ( -36.40)
>DroAna_CAF1 39486 97 - 1
-------CUGAGGCUGCGGCAAUGCGACUUUACCUUGUGCCACUUAGGCACUACAGCAGUGGCAACAACAAUGCCACUGUGCUGUUCUUGUUGCUUUUAGUGGC
-------.(((((.((((....)))).)))))......((((((.((((((.((((((((((((.......))))))..))))))....).)))))..)))))) ( -36.00)
>consensus
_CUGAGGAUGAGGCUGCAGCAAUGCGACUUUACCUUGUGCCACUUAGGCACUACGGCAGCGGCAACAACAAUGCCACUGGGCUGU______UGUUUUUAGUGGC
...((((.(((((.((((....)))).)))))))))..((((((.(((((..(((((((.((((.......)))).))..)))))......)))))..)))))) (-32.01 = -32.65 +   0.64)

alignment

secondary structure

dotplot

Window 2

Location	1,734,961 – 1,735,064
Length	103
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	84.32
Mean single sequence MFE	-33.67
Consensus MFE	-25.41
Energy contribution	-26.25
Covariance contribution	0.84
Combinations/Pair	1.16
Mean z-score	-2.25
Structure conservation index	0.75
SVM decision value	0.37
SVM RNA-class probability	0.708858
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1734961 103 - 27905053
AACCCGAGGCUGAGAAUGAGAACUGAGUGGAAAAA------CUGAGGAUGAGGCUGCAGCAAUGCGACUUUACCUUGUGCCACUUAGGAACUACGGCAGCGGCAACAAC
...(((..((((((........((((((((....(------(.((((.(((((.((((....)))).))))))))))).))))))))...)).))))..)))....... ( -35.70)
>DroSec_CAF1 44101 103 - 1
AACCCGAGGCUGAGAAUGAGAACUAAGUGGGAAAA------CUGAGGAUGAGGCUGCAGCAAUGCGACUUUACCUUGUGCCACUUAGGCACUACGGCAGCGGCAACAAC
...(((..((((((..((....((((((((....(------(.((((.(((((.((((....)))).))))))))))).)))))))).)))).))))..)))....... ( -36.20)
>DroSim_CAF1 45266 103 - 1
AACCCGAGGCUGAGAAUGAGAACUAAGUGGGAAAA------CUGAGGAUGAGGCUGCAGCAAUGCGACUUUACCUUGUGCCACUUAGGCACUACGGCAGCGGCAACAAC
...(((..((((((..((....((((((((....(------(.((((.(((((.((((....)))).))))))))))).)))))))).)))).))))..)))....... ( -36.20)
>DroEre_CAF1 43063 103 - 1
AACCCGAGGCUGAGAAUGAAAACUGAGUGGGAAAA------GUGAGGAUGAGGCUGCAGCAAUGCGACUUUACCUUGUGCCACUUAGGCACUACGGCAGCGGCGGCAAC
..((((..((((((..((....((((((((.....------(..(((.(((((.((((....)))).))))))))..).)))))))).)))).))))..))).)..... ( -37.60)
>DroYak_CAF1 44168 109 - 1
AACCCGAGGCUGAGAAUGAAAACUGAGUGGGAAAACAGAGGAUGAGGAUGAGGCUGCAGCAAAGCGACUUUACCUUGUGCCACUUAGGCUCUACGGCAGGGGCAACAAC
..(((...(((((((..(....((((((((.(.....((((.(((((.((..((....))....)).))))))))).).)))))))).)))).)))).)))........ ( -34.50)
>DroAna_CAF1 39521 78 - 1
CACCUGAGGCUGAAAU-------------------------------CUGAGGCUGCGGCAAUGCGACUUUACCUUGUGCCACUUAGGCACUACAGCAGUGGCAACAAC
........((((....-------------------------------.(((((.((((....)))).)))))....(((((.....)))))..))))..((....)).. ( -21.80)
>consensus
AACCCGAGGCUGAGAAUGAGAACUGAGUGGGAAAA______CUGAGGAUGAGGCUGCAGCAAUGCGACUUUACCUUGUGCCACUUAGGCACUACGGCAGCGGCAACAAC
...(((..((((...............................((((.(((((.((((....)))).)))))))))(((((.....)))))..))))..)))....... (-25.41 = -26.25 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:40 2006