Locus 2211

Sequence ID 2L_DroMel_CAF1
Location 5,966,761 – 5,966,916
Length 155
Max. P 0.964240
window3557 window3558

overview

Window 7

Location 5,966,761 – 5,966,881
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.78
Mean single sequence MFE -46.13
Consensus MFE -13.87
Energy contribution -13.73
Covariance contribution -0.13
Combinations/Pair 1.30
Mean z-score -2.32
Structure conservation index 0.30
SVM decision value 0.15
SVM RNA-class probability 0.608965
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5966761 120 - 22407834
AGCUGGCAUGCAAGAAUUUCAUCACCCAAUUGUGGGCAGCCCGCCAGCAGCUCCACCAGGAGUUCCAGCUGGCCCAAGCCCAGCGUCCACGGCCGCUUCGUAUGAUCCUGCAGCAUUUGC
.((..((.((((.((...((((.((.......(((((.....((((((((((((....))))))...))))))....)))))(((.(....).)))...)))))))).))))))....)) ( -41.80)
>DroVir_CAF1 37765 120 - 1
AUAUGGCGUGCCAGCAGUUUCUUACUCAGCUGCAGGCGGCGCAGCAGCAGCUGCACGCGGAACUGCAGCAGGCUCAGGCCCAGCGACCACGCCCAAUUCAUAUGCUGCUGCAGCGCCUAC
....((((((((.((((((........)))))).)))...(((((((((((((((........)))))).(((....)))..(((....)))..........))))))))).)))))... ( -55.30)
>DroPse_CAF1 40593 120 - 1
AUAUGGCCUGCCAGCAGUUCCUCGCCCAAAUCCAGGCAGCCCGCCAGCACUUCAAUACGGAGCUCCUGCAGGCCCAGGCCCAACGGCCACGACCACUGCAUAUAAUCCUGCAGCAGCUCA
....(((((((.((.((((((..(((........))).((......))..........)))))).)))))))))..((((....))))..(((..(((((........)))))..).)). ( -43.90)
>DroWil_CAF1 40917 120 - 1
GUAUGGCAUGCCAACAGUUCCUUACCCAAAUCAAGGAGGCCCAUCAGCAGUUGCAGGAGGAAUUGCAGCAGGCCCAGGCCCAGCGGCCACGCCCAUUACAUAUAAUCCUGCAGCAGCUAA
(.((((...(((......(((((.........)))))))))))))(((.(((((((((.....((.((..(((...((((....))))..)))..)).)).....))))))))).))).. ( -38.90)
>DroMoj_CAF1 34237 120 - 1
AUAUGGCAUGCCAGCAGUUCAUUACCCAGGUGCAGGCGGCGCACCAGCAGCUGCACGUGGAAAUGCAGCAGGCGCACGCCCAGCGCCCGCGGCCGCUGCAUAUGCUGAUGCAGCAGCUCC
....(((..(((.(((((.....))(((.((((((.(.((......)).))))))).)))...))).((.(((((.......))))).))))).(((((((......))))))).))).. ( -52.80)
>DroAna_CAF1 25356 120 - 1
GUAUGGCCUGCCAGCAGUUCCUCACCCACCUCUUGGCGGCCCAACAGCAGUUUCACCAGGAGUUCCAGUUGGCCCAGGCCCAACGGCCACGGCCUCUCCGCAUGAUCCUGCAGCGGCUGC
...(((....)))(((((..((...((.((....)).)).......((((..(((...((((........((((..((((....))))..)))).))))...)))..))))))..))))) ( -44.10)
>consensus
AUAUGGCAUGCCAGCAGUUCCUCACCCAAAUCCAGGCGGCCCACCAGCAGCUGCACGAGGAAUUCCAGCAGGCCCAGGCCCAGCGGCCACGGCCACUGCAUAUGAUCCUGCAGCAGCUAC
....(((.(((....((((((...((........))..((......))..........))))))...((.(((....)))...((....))..................)).)))))).. (-13.87 = -13.73 +  -0.13)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 5,966,801 – 5,966,916
Length 115
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 73.26
Mean single sequence MFE -45.28
Consensus MFE -13.66
Energy contribution -13.83
Covariance contribution 0.17
Combinations/Pair 1.35
Mean z-score -2.75
Structure conservation index 0.30
SVM decision value 1.56
SVM RNA-class probability 0.964240
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5966801 115 - 22407834
AUG--GCAGCCCCUCCAACUGCACCUGCAGCGGAGUCAGCUGGCAUGCAAGAAUUUCAUCACCCAAUUGUGGGCAGCCCGCCAGCAGCUCCACCAGGAGUUCCAGCUGGCCCAAGCC
(((--.((((..((((..((((....)))).))))...)))).)))((.............((((....))))......((((((((((((....))))))...))))))....)). ( -44.40)
>DroVir_CAF1 37805 115 - 1
CCU--GCUGCCUUUGCAGCUGGGCCUGCUCCGCAAUCAUAUGGCGUGCCAGCAGUUUCUUACUCAGCUGCAGGCGGCGCAGCAGCAGCUGCACGCGGAACUGCAGCAGGCUCAGGCC
(((--(((((....))))).(((((((((((((.........((.((((.((((((........)))))).))))))(((((....)))))..)))))......))))))))))).. ( -57.20)
>DroPse_CAF1 40633 115 - 1
AUG--GCUCCCACUCCGGCUGCAUCUCCUGCGCAGUCAUAUGGCCUGCCAGCAGUUCCUCGCCCAAAUCCAGGCAGCCCGCCAGCACUUCAAUACGGAGCUCCUGCAGGCCCAGGCC
..(--(((........((((((.........))))))....(((((((.((.((((((..(((........))).((......))..........)))))).)))))))))..)))) ( -43.30)
>DroWil_CAF1 40957 117 - 1
AUCCUUCUCCCACUGCGCCUGCUGCUCCUACGCAAUCGUAUGGCAUGCCAACAGUUCCUUACCCAAAUCAAGGAGGCCCAUCAGCAGUUGCAGGAGGAAUUGCAGCAGGCCCAGGCC
............(((.(((((((((((((..(((((.((((((...(((......(((((.........))))))))))))..)).)))))...))))...))))))))).)))... ( -42.70)
>DroAna_CAF1 25396 115 - 1
AUG--GCUGCCCCUGCAUUUUCACCUCCGGCGCAGCCGUAUGGCCUGCCAGCAGUUCCUCACCCACCUCUUGGCGGCCCAACAGCAGUUUCACCAGGAGUUCCAGUUGGCCCAGGCC
(((--(((((.((...............)).))))))))..(((((((((((.(.....)......(((((((.((..(.......)..)).))))))).....))))))..))))) ( -40.76)
>DroPer_CAF1 40393 115 - 1
AUG--GCUCCCACUCCGGCUGCAUCUCCUGCGCAGUCAUAUGGCCUGCCAGCAGUUCCUCGCCCAAAUCCAGGCAGCCCGCCAGCACUUCAAUACGGAGCUCCUGCAGGCCCAGGCC
..(--(((........((((((.........))))))....(((((((.((.((((((..(((........))).((......))..........)))))).)))))))))..)))) ( -43.30)
>consensus
AUG__GCUCCCACUCCAGCUGCACCUCCUGCGCAGUCAUAUGGCCUGCCAGCAGUUCCUCACCCAAAUCCAGGCAGCCCACCAGCAGUUCCACAAGGAGCUCCAGCAGGCCCAGGCC
.....(((....((((...............))))......(((.(((....((((((...((........))..((......))..........))))))...))).)))..))). (-13.66 = -13.83 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:15 2006