Locus 5038

Sequence ID 3R_DroMel_CAF1
Location 13,264,547 – 13,264,656
Length 109
Max. P 0.637251
window8226

overview

Window 6

Location 13,264,547 – 13,264,656
Length 109
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.61
Mean single sequence MFE -32.12
Consensus MFE -15.78
Energy contribution -15.53
Covariance contribution -0.25
Combinations/Pair 1.14
Mean z-score -2.21
Structure conservation index 0.49
SVM decision value 0.21
SVM RNA-class probability 0.637251
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13264547 109 - 27905053
GCUCGGGAAAAUCGAACC----AAAUUGGGGGGCCAC-----UG-CCACUUCCUCGAAUGGUGCGACAUGUAAAACGCGUGUCAGGCGACAACGAUGCGUGU-UAACAAUGCGUAAGUAU
((((((.....))))(((----(..(((((((((...-----.)-))....)))))).))))))((((((((.....((((((....))).))).)))))))-)....((((....)))) ( -31.00)
>DroVir_CAF1 21863 104 - 1
-CUCG--AAAAGCCCCCU----AAAUAGGG-GG-CAA-----AG-CGACUUCCUCAAAUGGAGCGACAUGUAAAACGCGUGUCAGGUGACAACGAUACAUGU-UAACAAUGCGUAAGUAU
-.(((--....(((((((----....))))-))-)..-----..-))).((((......)))).((((((((.....((((((....))).))).)))))))-)....((((....)))) ( -36.20)
>DroGri_CAF1 20989 102 - 1
------AAAUACCCCGCU----AAAAAUGG-GGCUAC-----AG-CGACUUCCUCAAAUGGAGCGACAUGUAAAACGCGUGUCAGGUGACAACGAUACAUGU-UAACAAUGCGUAAGUAU
------.....(((((..----.....)))-))....-----.(-(....(((......)))))((((((((.....((((((....))).))).)))))))-)....((((....)))) ( -25.80)
>DroWil_CAF1 22929 116 - 1
--ACAAACAAAUCUGCCC-CA-AAAAUGGGAGGCAGCAACAGCGUCAACUUCCUCGAAUGGGGCGACAUGUAAAACGCGUGUCAUGUGACAUCGAUGCGUGUUUAACAAUGCGUAAGUAU
--...........(((((-((-.....(((((...((....)).....))))).....)))))))...(((.((((((((((((((...))).))))))))))).)))((((....)))) ( -39.40)
>DroMoj_CAF1 17362 110 - 1
-CUCGCAAAAGGCCCCCUCGAAAAAAGAGG-GG-CAC-----AG-CGACUUCCUCAAAUGGAGCGACAUGUAAAACGCGUGUCAGGUGACAACGAUACAUGU-UAACAAUGCGUAAGUAU
-.((((.....(((((.((.......))))-))-)..-----.)-))).((((......)))).((((((((.....((((((....))).))).)))))))-)....((((....)))) ( -35.30)
>DroAna_CAF1 41104 106 - 1
-CUCGAAAAAAUCUCUCC----AAAAAUGGGGGCCA-------G-CAACUUCCUCGAAUGGUGCAACAUGUAAAACGCGUGUCAGGCGACAACGAUGCGUGU-UAACAAUGCGUAAGUAU
-.(((.........((((----(....)))))(((.-------(-((....((......))))).((((((.....))))))..))).....)))(((((((-.....)))))))..... ( -25.00)
>consensus
_CUCG_AAAAAUCCCCCC____AAAAAGGG_GGCCAC_____AG_CGACUUCCUCAAAUGGAGCGACAUGUAAAACGCGUGUCAGGUGACAACGAUACAUGU_UAACAAUGCGUAAGUAU
.................................................((((......))))..(((((((.....((((((....)))).)).)))))))......((((....)))) (-15.78 = -15.53 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:48 2006