Locus 8121

Sequence ID	X_DroMel_CAF1
Location	20,191,178 – 20,191,293
Length	115
Max. P	0.912708

overview

Window 2

Location	20,191,178 – 20,191,293
Length	115
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	93.48
Mean single sequence MFE	-16.62
Consensus MFE	-14.38
Energy contribution	-14.06
Covariance contribution	-0.32
Combinations/Pair	1.04
Mean z-score	-1.54
Structure conservation index	0.87
SVM decision value	1.02
SVM RNA-class probability	0.901464
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20191178 115 + 22224390
--GUGUGGAAGGUGGGGAA--AAACCACAGCAAAACAAAUUAAUAAAUGCAUAAUAAAUAUGCGUAAUAAUAAUGACUAAAGAAAAAUCAGAAACAAUAAAUAUUAUUUGAGUAGUGUC
--.(((.(...((((....--...))))..)...))).........(((((((.....)))))))...................................(((((((....))))))). ( -15.50)
>DroSec_CAF1 12806 115 + 1
--GGUUGGAAGGUGGGGAA--AAACCACAGCAAAACAAAUUAAUAAAUGCAUAAUAAAUAUGCGUAAUAAUAAUGACUAAAGAAAAAUCAGAAACAAUAAAUAUUAUUUGAGUAGUGUC
--.((((....((((....--...))))..................(((((((.....))))))).............................))))..(((((((....))))))). ( -15.90)
>DroSim_CAF1 10909 114 + 1
--GGUUGGGAGGUGGGGAA---AACCACAGCAAAACAAAUUAAUAAAUGCAUAAUAAAUAUGCGUAAUAAUAAUGACUAAAGAAAAAUCAGAAACAAUAAAUAUUAUUUGAGUAGUGUC
--.(((..(..((((....---..))))..)..)))..........(((((((.....)))))))...................................(((((((....))))))). ( -18.00)
>DroEre_CAF1 10698 117 + 1
--AGGUGGAGAGCGGGCAAAAAAACCGCAGCAAAACAAAUUAAUAAAUGCAUAAUAAAUAUGCGUAAUAAUAAUGACUAAAGAAAAAUCAGAUACAAUAAAUAUUAUUUGAGUAGUGUC
--.........((((.........)))).(((..((..........(((((((.....)))))))......................(((((((..........)))))))))..))). ( -18.50)
>DroYak_CAF1 10390 117 + 1
AAGGGCGGAAAGUGGGCAA--AAACCACAGCAAAACAAAUUAAUAAAUGCAUAAUAAAUAUGCGUAAUAAUAAUGACUAAAGAAAAAUCAGAUACAAUAAAUAUUAUUUCAGUAGUGUC
...(((.....((((....--...))))..................(((((((.....)))))))..........((((..((((.....................))))..))))))) ( -15.20)
>consensus
__GGGUGGAAGGUGGGGAA__AAACCACAGCAAAACAAAUUAAUAAAUGCAUAAUAAAUAUGCGUAAUAAUAAUGACUAAAGAAAAAUCAGAAACAAUAAAUAUUAUUUGAGUAGUGUC
...........((((.........)))).(((..((.((.(((((.(((((((.....)))))))................((....))............))))).))..))..))). (-14.38 = -14.06 +  -0.32)

alignment

secondary structure

dotplot

Window 3

Location	20,191,178 – 20,191,293
Length	115
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	93.48
Mean single sequence MFE	-13.97
Consensus MFE	-13.48
Energy contribution	-13.16
Covariance contribution	-0.32
Combinations/Pair	1.04
Mean z-score	-1.29
Structure conservation index	0.97
SVM decision value	1.08
SVM RNA-class probability	0.912708
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20191178 115 - 22224390
GACACUACUCAAAUAAUAUUUAUUGUUUCUGAUUUUUCUUUAGUCAUUAUUAUUACGCAUAUUUAUUAUGCAUUUAUUAAUUUGUUUUGCUGUGGUUU--UUCCCCACCUUCCACAC--
((((.......(((((((.....((...((((.......)))).)).)))))))..(((((.....)))))...........))))....(((((...--...........))))).-- ( -14.14)
>DroSec_CAF1 12806 115 - 1
GACACUACUCAAAUAAUAUUUAUUGUUUCUGAUUUUUCUUUAGUCAUUAUUAUUACGCAUAUUUAUUAUGCAUUUAUUAAUUUGUUUUGCUGUGGUUU--UUCCCCACCUUCCAACC--
...(((((.(((((((((..((.((...((((.......)))).)).)).))))).(((((.....)))))..............))))..)))))..--.................-- ( -13.60)
>DroSim_CAF1 10909 114 - 1
GACACUACUCAAAUAAUAUUUAUUGUUUCUGAUUUUUCUUUAGUCAUUAUUAUUACGCAUAUUUAUUAUGCAUUUAUUAAUUUGUUUUGCUGUGGUU---UUCCCCACCUCCCAACC--
((((.......(((((((.....((...((((.......)))).)).)))))))..(((((.....)))))...........)))).....((((..---....)))).........-- ( -13.70)
>DroEre_CAF1 10698 117 - 1
GACACUACUCAAAUAAUAUUUAUUGUAUCUGAUUUUUCUUUAGUCAUUAUUAUUACGCAUAUUUAUUAUGCAUUUAUUAAUUUGUUUUGCUGCGGUUUUUUUGCCCGCUCUCCACCU--
((((.......(((((((.....((...((((.......)))).)).)))))))..(((((.....)))))...........)))).....((((.........)))).........-- ( -14.60)
>DroYak_CAF1 10390 117 - 1
GACACUACUGAAAUAAUAUUUAUUGUAUCUGAUUUUUCUUUAGUCAUUAUUAUUACGCAUAUUUAUUAUGCAUUUAUUAAUUUGUUUUGCUGUGGUUU--UUGCCCACUUUCCGCCCUU
...(((((.(((((((.............(((((.......)))))..........(((((.....)))))..........)))))))...)))))..--................... ( -13.80)
>consensus
GACACUACUCAAAUAAUAUUUAUUGUUUCUGAUUUUUCUUUAGUCAUUAUUAUUACGCAUAUUUAUUAUGCAUUUAUUAAUUUGUUUUGCUGUGGUUU__UUCCCCACCUUCCACCC__
((((.......(((((((.....((...((((.......)))).)).)))))))..(((((.....)))))...........)))).....((((.........))))........... (-13.48 = -13.16 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:09 2006