Locus 4184

Sequence ID 2R_DroMel_CAF1
Location 13,779,222 – 13,779,326
Length 104
Max. P 0.547640
window6728

overview

Window 8

Location 13,779,222 – 13,779,326
Length 104
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.82
Mean single sequence MFE -26.37
Consensus MFE -17.53
Energy contribution -17.87
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 0.66
SVM decision value 0.03
SVM RNA-class probability 0.547640
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13779222 104 - 20766785
UACGAGCAUUGGCGCAAAAGUCCAAGUUCAAAGCCAUAUUUGAGUUGGG--AAAAAUCAAUAAAAAGAUCGCAAGCUGCGAUGGCACAUGCGUGUUAUUUCCAAC-C-------------
...((((.(((((......).))))))))..............((((((--((..............(((((.....)))))(((((....))))).))))))))-.------------- ( -27.40)
>DroVir_CAF1 95608 95 - 1
UA------UUGGCGCAAAAGUCCAAGUUCAAAGCCAUAUUUGACUUGGG--AAAAAUCAAUAAAACGAUCGCUUGCUGC---GGCACAUGCGUGUGAGCUGCACU-C-------------
..------..((.(((....(((((((.((((......)))))))))))--...................(((..((((---(.....)))).)..)))))).))-.------------- ( -25.10)
>DroGri_CAF1 94425 95 - 1
UA------UUGGCGCAAAAGUCCAAGUUCAAAGCCAUAUUUGACUUGGG--AAAAAUCAAUAAAACGAUCGCUUGCUGC---GGCACAUGCGUGUGUGCCACACU-C-------------
..------...((((((...(((((((.((((......)))))))))))--....(((........)))...)))).))---(((((((....))))))).....-.------------- ( -27.60)
>DroWil_CAF1 95865 111 - 1
UA------UUGGCGCAAAAGUCCAAGUUCAAAGCCAUAUUUGACUUGGG--AAAAAUCAAUAAAAAGAUCGCUCGCUGCGAUGGCACAUGCGUGUUAUGCUUAUG-CUUAUUCCCAUUCU
..------.....(((.((((((((((.((((......)))))))))).--................(((((.....)))))(((((....)))))..)))).))-)............. ( -25.70)
>DroMoj_CAF1 111383 95 - 1
UA------UUGGCGCAAAAGUCCAAGUUCAAAGCCAUAUUUGACUUGGG--AAAAAUCAAUAAAACGAUCGCUCGCUGG---GGCACAUGCGUGUGAGCCGCACU-C-------------
..------..(((.......(((((((.((((......)))))))))))--.................((((.(((((.---....)).))).))))))).....-.------------- ( -26.70)
>DroAna_CAF1 87942 107 - 1
UACGAGCAUGAGCGCAAAAGUCCAAGUUCAAAGCCAUAUUUGAGUUGGGAGAAAAAUCAAUAAAAAGAUCGCAAGCUGCGAUGGCACAUGCGUGUUAUUUCCAUCCC-------------
.(((.(((((.((.......(((((.((((((......)))))))))))..................(((((.....))))).)).))))).)))............------------- ( -25.70)
>consensus
UA______UUGGCGCAAAAGUCCAAGUUCAAAGCCAUAUUUGACUUGGG__AAAAAUCAAUAAAAAGAUCGCUAGCUGC___GGCACAUGCGUGUGAGCCCCACU_C_____________
...........(((((.....((((((.((((......))))))))))..........................(((.....)))...)))))........................... (-17.53 = -17.87 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:46 2006