Locus 7364

Sequence ID	2L_DroMel_CAF1
Location	20,514,012 – 20,514,115
Length	103
Max. P	0.999210

overview

Window 3

Location	20,514,012 – 20,514,115
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	91.75
Mean single sequence MFE	-12.74
Consensus MFE	-10.56
Energy contribution	-10.00
Covariance contribution	-0.56
Combinations/Pair	1.16
Mean z-score	-1.34
Structure conservation index	0.83
SVM decision value	0.13
SVM RNA-class probability	0.596697
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20514012 103 + 22407834
AUCUCUAGGACCCUUCACAUACCCCAUACAUUCCCAAACUCAGACAAAAGUCAAAAAGUUACAAUUUACGCUUGUAAAUUGCUUUAAAAACUUCUCUCCGGUU
........((((..............................(((....)))..((((...((((((((....))))))))))))..............)))) ( -11.70)
>DroSec_CAF1 35370 103 + 1
AUCUCUAGGACUCUUCACAUACCCCACACAUUCCCAAACUCAGACAAAAGUCAAAAAGUUACAAUUUACGCUUGUAAAUUGCUUUAAAAACUUCUCUCCGGUU
.......(((................................(((....)))..((((...((((((((....))))))))))))...........))).... ( -11.60)
>DroSim_CAF1 36202 103 + 1
AUCUCUAGGACCCUUCACAUACCCCACACAUUCCCAAACUCAGACAAAAGUCAAAAAGUUACAAUUUACGCUUGUAAAUUGCUUUAAAAACUUCUCUCCGGUU
........((((..............................(((....)))..((((...((((((((....))))))))))))..............)))) ( -11.70)
>DroEre_CAF1 29331 91 + 1
AUCUCUGGGACUUUCCAC-----------AUUCCCAAACUCAGACAAAAGUCAA-AAGUUACAAUUUACGCUUGUAGAUUGCUUUAAAAACUUCUCUCCGGUU
.....(((((........-----------..)))))((((..(((....)))..-.)))).((((((((....))))))))...................... ( -14.30)
>DroYak_CAF1 30571 103 + 1
AUCUCUGGAACUUUUCACAUACCCCGUACAUUCCCAAACUCAGACAAAAGUCAAAAAGUUACAAUUUACGCUUGUAAAUUGCUUUAAAAACUUCUCUCCGGUU
....(((((((((((.((.......))...............(((....))).))))))..((((((((....))))))))...............))))).. ( -14.40)
>consensus
AUCUCUAGGACUCUUCACAUACCCCACACAUUCCCAAACUCAGACAAAAGUCAAAAAGUUACAAUUUACGCUUGUAAAUUGCUUUAAAAACUUCUCUCCGGUU
........((((........................((((..(((....)))....)))).((((((((....))))))))..................)))) (-10.56 = -10.00 +  -0.56)

alignment

secondary structure

dotplot

Window 4

Location	20,514,012 – 20,514,115
Length	103
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	91.75
Mean single sequence MFE	-25.35
Consensus MFE	-23.76
Energy contribution	-23.76
Covariance contribution	-0.00
Combinations/Pair	1.07
Mean z-score	-2.11
Structure conservation index	0.94
SVM decision value	3.44
SVM RNA-class probability	0.999210
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20514012 103 - 22407834
AACCGGAGAGAAGUUUUUAAAGCAAUUUACAAGCGUAAAUUGUAACUUUUUGACUUUUGUCUGAGUUUGGGAAUGUAUGGGGUAUGUGAAGGGUCCUAGAGAU
...((((.(((((((...((((((((((((....))))))))...))))..))))))).))))..(((((((...((((.....)))).....)))))))... ( -25.90)
>DroSec_CAF1 35370 103 - 1
AACCGGAGAGAAGUUUUUAAAGCAAUUUACAAGCGUAAAUUGUAACUUUUUGACUUUUGUCUGAGUUUGGGAAUGUGUGGGGUAUGUGAAGAGUCCUAGAGAU
...((((.(((((((...((((((((((((....))))))))...))))..))))))).))))..(((((((.(.(.............).).)))))))... ( -24.32)
>DroSim_CAF1 36202 103 - 1
AACCGGAGAGAAGUUUUUAAAGCAAUUUACAAGCGUAAAUUGUAACUUUUUGACUUUUGUCUGAGUUUGGGAAUGUGUGGGGUAUGUGAAGGGUCCUAGAGAU
(((((((.(((((((...((((((((((((....))))))))...))))..))))))).)))).))).....((.(.(((((..(.....)..))))).).)) ( -24.50)
>DroEre_CAF1 29331 91 - 1
AACCGGAGAGAAGUUUUUAAAGCAAUCUACAAGCGUAAAUUGUAACUU-UUGACUUUUGUCUGAGUUUGGGAAU-----------GUGGAAAGUCCCAGAGAU
...((((.(((((((......(((((.(((....))).))))).....-..))))))).))))..(((((((.(-----------......).)))))))... ( -24.22)
>DroYak_CAF1 30571 103 - 1
AACCGGAGAGAAGUUUUUAAAGCAAUUUACAAGCGUAAAUUGUAACUUUUUGACUUUUGUCUGAGUUUGGGAAUGUACGGGGUAUGUGAAAAGUUCCAGAGAU
...((((.(((((((...((((((((((((....))))))))...))))..))))))).))))..(((((((...((((.....)))).....)))))))... ( -27.80)
>consensus
AACCGGAGAGAAGUUUUUAAAGCAAUUUACAAGCGUAAAUUGUAACUUUUUGACUUUUGUCUGAGUUUGGGAAUGUAUGGGGUAUGUGAAGAGUCCUAGAGAU
...((((.(((((((...((((((((((((....))))))))...))))..))))))).))))..(((((((.....................)))))))... (-23.76 = -23.76 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:51 2006