Locus 355

Sequence ID 3L_DroMel_CAF1
Location 1,027,950 – 1,028,088
Length 138
Max. P 0.768947
window523 window524

overview

Window 3

Location 1,027,950 – 1,028,051
Length 101
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 82.40
Mean single sequence MFE -26.67
Consensus MFE -17.25
Energy contribution -16.28
Covariance contribution -0.97
Combinations/Pair 1.20
Mean z-score -1.98
Structure conservation index 0.65
SVM decision value 0.21
SVM RNA-class probability 0.634594
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1027950 101 - 23771897
AUAUAUAUAACAAAAUUCACUUGAUUGCAGUUUUCAAGUGAAAUCCUAGCACACUCCACAACGAC----UCGUUGGCUGCGCCUAAGGGCUGAGCAUUGCAGGAU
...............(((((((((.........)))))))))(((((.(((.......(((((..----.)))))(((..(((....)))..)))..)))))))) ( -30.30)
>DroVir_CAF1 15942 89 - 1
-----CAUAUUGAAAUUCACUUGAUUGCAGUUUUCAAGUGAAAUCGUAGCACACUUCAGAGCG-C----UUGUUGGCU-UGCCUAAGGGUUAAGGC-----GGAU
-----..........(((((((((.........))))))))).((((......(((.((.(((-(----(....))).-.)))).)))......))-----)).. ( -20.10)
>DroGri_CAF1 12524 94 - 1
ACAUACAUAUCGAAAUUCACUUGAUUGCAGUUUUCAAGUGAAAUCGUAGCACACUUCACAACG-C----UUGUUGGCU-UGCCUAAGGGUUAAACG-----GGUG
..........(((..(((((((((.........))))))))).)))...............((-(----(((((....-.(((....)))..))))-----)))) ( -21.60)
>DroEre_CAF1 13325 100 - 1
-UAUAUAUAUCAAAAUUCACUUGAUUGCAGUUUUCAAGUGAAAUCCUAGCACACUCCACAACGAC----UCGUUGGCUGCGCCUAAGGGCUGAGCAUUGCAGGAU
-..............(((((((((.........)))))))))(((((.(((.......(((((..----.)))))(((..(((....)))..)))..)))))))) ( -30.30)
>DroMoj_CAF1 12853 94 - 1
AUAUGCAUAUUGAAAUUCACUUGAUUGCAGUUUUCAAGUGAAAUCGUAGCACACUUCAGAGCG-C----UUGUUGGCC-CGCCUAAGGGUUAAGGC-----GGCU
....((...(((((.(((((((((.........)))))))))...((.....)))))))..((-(----(..((((((-(......))))))))))-----))). ( -26.80)
>DroAna_CAF1 9016 104 - 1
-UAUAUAUAUCAAAAUUCACUUGAUUGCAGUUUUCAAGUGAAAUCCUAGCACACUUCACAACGACUCACUCGUUGGCAGCGCCUAAGGGCUGAGCAUUGCAGGAU
-..............(((((((((.........)))))))))(((((.(((...((((((((((.....)))))).....(((....)))))))...)))))))) ( -30.90)
>consensus
_UAUACAUAUCAAAAUUCACUUGAUUGCAGUUUUCAAGUGAAAUCCUAGCACACUUCACAACG_C____UCGUUGGCU_CGCCUAAGGGCUAAGCA_____GGAU
...............(((((((((.........)))))))))....((((.........((((.......))))(((...))).....))))............. (-17.25 = -16.28 +  -0.97)

alignment

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secondary structure

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dotplot

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Window 4

Location 1,027,985 – 1,028,088
Length 103
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 93.15
Mean single sequence MFE -18.64
Consensus MFE -15.62
Energy contribution -15.66
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -1.47
Structure conservation index 0.84
SVM decision value 0.52
SVM RNA-class probability 0.768947
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1027985 103 - 23771897
CAACUAGGGAAUUUCACGAUUUUUUCUCCGUGUGUACAUAUAUAUAACAAAAUUCACUUGAUUGCAGUUUUCAAGUGAAAUCCUAGCACACUCCACAACGACU
...((((((.....((((..........))))....................(((((((((.........))))))))).))))))................. ( -20.00)
>DroSec_CAF1 10631 102 - 1
CAAUUAGGGAAUCUGACGAUUU-UUCUCCGUGUGUACAUAUAUAUAUCAAAAUUCACUUGAUUGCAGUUUUCAAGUGAAAUCCUAGCACACUUCACAACGACU
......(((((((....)))))-....))((((((..(((....))).....(((((((((.........)))))))))......))))))............ ( -18.50)
>DroSim_CAF1 10878 102 - 1
GAAUUAAGGAAUCUGACGAUUU-UUCUCCGUGUGUACAUAUAUAUAUCAAAAUUCACUUGAUUGCAGUUUUCAAGUGAAAUCCUAGCACACUUCACAACGACU
(((...(((((((....)))))-))....((((((..(((....))).....(((((((((.........)))))))))......)))))))))......... ( -19.00)
>DroEre_CAF1 13360 100 - 1
CAAUUAAAGAACCUGAUGAUUU-UUCUCCGUGUGUG--UAUAUAUAUCAAAAUUCACUUGAUUGCAGUUUUCAAGUGAAAUCCUAGCACACUCCACAACGACU
......................-......(((((((--((....))).....(((((((((.........)))))))))......))))))............ ( -16.10)
>DroYak_CAF1 11191 100 - 1
CAAUUAAAGAAUCUGAUGAUUU-UUCUCCGUGUGUG--UAUAUAUAUCAAAAUUCACUUGAUUGCAGUUUUCAAGUGAAAUCCUAGCACACUUCACAACGACU
......(((((((....)))))-))....(((((((--((....))).....(((((((((.........)))))))))......))))))............ ( -19.60)
>consensus
CAAUUAAGGAAUCUGACGAUUU_UUCUCCGUGUGUACAUAUAUAUAUCAAAAUUCACUUGAUUGCAGUUUUCAAGUGAAAUCCUAGCACACUUCACAACGACU
........(((((....))))).......((((((...((....))......(((((((((.........)))))))))......))))))............ (-15.62 = -15.66 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:55 2006