Locus 3798

Sequence ID	X_DroMel_CAF1
Location	10,078,681 – 10,078,781
Length	100
Max. P	0.928681

overview

Window 9

Location	10,078,681 – 10,078,781
Length	100
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	87.22
Mean single sequence MFE	-26.15
Consensus MFE	-20.68
Energy contribution	-21.68
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.09
Structure conservation index	0.79
SVM decision value	1.19
SVM RNA-class probability	0.928681
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10078681 100 + 22224390
--CAGGC------AGCCGGAUUAUUAUAUCAUGCAACAGCGUUUUCAAAUUUGUUAAUUUUCUGUGCAUUUUUGUAUAAAUUAUUUAAUGCGCGCUAUUGCGCAUGCG------------
--...((------(((..(((......)))..((((.(((......(((((....)))))...(((((((...(((.....)))..)))))))))).)))))).))).------------ ( -23.20)
>DroSec_CAF1 4935 100 + 1
--CAGGC------AGCCGGAUUAUUAUAUCAUGCAACAGCGUUUUCAAAUUUGUUAAUUUUCUGUGCAUUUUUGUAUAAAUUAUUUAAUGCGCGCUGUUGCGCAUGCG------------
--...((------(((..(((......)))..((((((((......(((((....)))))...(((((((...(((.....)))..))))))))))))))))).))).------------ ( -29.20)
>DroSim_CAF1 4685 100 + 1
--CAGGC------AGCCGGAUUAUUAUAUCAUGCAACAGCGUUUUCAAAUUUGUUAAUUUUCUGUGCAUUUUUGUAUAAAUUAUUUAAUGCGCGCUGUUGCGCAUGCG------------
--...((------(((..(((......)))..((((((((......(((((....)))))...(((((((...(((.....)))..))))))))))))))))).))).------------ ( -29.20)
>DroEre_CAF1 4987 106 + 1
--CAGGCAGCGGCAGCCGGACUAUUAUAUCAUGCAACAUCGUUUUCAAAUUUGUUAAUUUUCUGUGCAUUUUUGUAUAAAUUAUUUAAUGCGCGCUGUUGCGCAUGCG------------
--...((.((((((((.(((..((((...((....................)).))))..)))(((((((...(((.....)))..))))))))))))))))).....------------ ( -25.25)
>DroPer_CAF1 4548 113 + 1
AGUCGUC------AGCCGGAUUAUUAUAUCAUGCAACAUAA-UUUGAAAUUUGUUAAUUUUGUGUGCAUUUUUGUAUAAAUUAUUUAAUGCGCGUUGUUGCGCAUGUUACCCCGACCCCA
.((((..------..........((((((.(((((.(((((-.((((......))))..))))))))))....))))))........(((((((....))))))).......)))).... ( -23.90)
>consensus
__CAGGC______AGCCGGAUUAUUAUAUCAUGCAACAGCGUUUUCAAAUUUGUUAAUUUUCUGUGCAUUUUUGUAUAAAUUAUUUAAUGCGCGCUGUUGCGCAUGCG____________
..............((..(((......)))..((((((((......(((((....)))))...(((((((...(((.....)))..)))))))))))))))))................. (-20.68 = -21.68 +   1.00)

alignment

secondary structure

dotplot

Window 0

Location	10,078,681 – 10,078,781
Length	100
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	87.22
Mean single sequence MFE	-22.59
Consensus MFE	-17.43
Energy contribution	-17.91
Covariance contribution	0.48
Combinations/Pair	1.09
Mean z-score	-2.17
Structure conservation index	0.77
SVM decision value	1.16
SVM RNA-class probability	0.923666
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10078681 100 - 22224390
------------CGCAUGCGCAAUAGCGCGCAUUAAAUAAUUUAUACAAAAAUGCACAGAAAAUUAACAAAUUUGAAAACGCUGUUGCAUGAUAUAAUAAUCCGGCU------GCCUG--
------------.(((.(((((((((((.(((((................))))).((((...........))))....)))))))))..(((......)))..)))------))...-- ( -22.09)
>DroSec_CAF1 4935 100 - 1
------------CGCAUGCGCAACAGCGCGCAUUAAAUAAUUUAUACAAAAAUGCACAGAAAAUUAACAAAUUUGAAAACGCUGUUGCAUGAUAUAAUAAUCCGGCU------GCCUG--
------------.(((.(((((((((((.(((((................))))).((((...........))))....)))))))))..(((......)))..)))------))...-- ( -23.99)
>DroSim_CAF1 4685 100 - 1
------------CGCAUGCGCAACAGCGCGCAUUAAAUAAUUUAUACAAAAAUGCACAGAAAAUUAACAAAUUUGAAAACGCUGUUGCAUGAUAUAAUAAUCCGGCU------GCCUG--
------------.(((.(((((((((((.(((((................))))).((((...........))))....)))))))))..(((......)))..)))------))...-- ( -23.99)
>DroEre_CAF1 4987 106 - 1
------------CGCAUGCGCAACAGCGCGCAUUAAAUAAUUUAUACAAAAAUGCACAGAAAAUUAACAAAUUUGAAAACGAUGUUGCAUGAUAUAAUAGUCCGGCUGCCGCUGCCUG--
------------.(((.(((...((((.((.((((......(((((.....(((((((.....((((.....))))......)).)))))..))))))))).)))))).))))))...-- ( -18.50)
>DroPer_CAF1 4548 113 - 1
UGGGGUCGGGGUAACAUGCGCAACAACGCGCAUUAAAUAAUUUAUACAAAAAUGCACACAAAAUUAACAAAUUUCAAA-UUAUGUUGCAUGAUAUAAUAAUCCGGCU------GACGACU
...(((((((.....((((((......))))))........(((((.....(((((.(((.((((...........))-)).))))))))..)))))...)))))))------....... ( -24.40)
>consensus
____________CGCAUGCGCAACAGCGCGCAUUAAAUAAUUUAUACAAAAAUGCACAGAAAAUUAACAAAUUUGAAAACGCUGUUGCAUGAUAUAAUAAUCCGGCU______GCCUG__
...................(((((((((.(((((................))))).....(((((....))))).....)))))))))...............(((.......))).... (-17.43 = -17.91 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:52 2006